miR-Intess™

confident miRBase miRNAs

miRNAknown_cloningHIGH_randfoldOK (4 loci)

rno-mir-878

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-878 3arm	19	7	3	2	0	1	6	5	71	1
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-878 3arm	0.001	0.000	0.000	0.000	0	0.000	0.000	0.000	0.005	0.000

block2895942 (miRBase rno-mir-878) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-878

0.003

no

no

0.48/0.56

18/24/0.72

0.0

1.6

53

0

9

0

11

4

3arm

1

nd

0.14

2

115

9

na

na

Clusters

Located in cluster 91: rno-mir-878, rno-mir-881

		reads	miRBase family seed
seed	----------------------------------------------------------------GCAUGAC---------------------------------------	95	novel
seed	-----------------------------------------------------------------CAUGACA--------------------------------------	17	miR-878
seed	------------------------------------------------------------------AUGACAC-------------------------------------	3	miR-425
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S2	T4S1	T4S2	T5S1	T5S2
	---------------------------------------------------------------TGCATGACACCATACTGGGTAG-------------------------	22	6	1	2	1	-	2	1	22	-
	---------------------------------------------------------------TGCATGACACCATACTGGGT---------------------------	20	1	1	-	-	1	2	1	20	-
	---------------------------------------------------------------TGCATGACACCATACTGG-----------------------------	18	4	3	-	-	-	-	-	11	-
rno-miR-878	----------------------------------------------------------------GCATGACACCATACTGGGTAGA------------------------	22	-	1	-	1	-	-	-	5	-
	---------------------------------------------------------------TGCATGACACCATACTGGG----------------------------	19	-	1	-	-	-	2	-	4	-
	---------------------------------------------------------------TGCATGACACCATACTGGGTAGA------------------------	23	3	-	1	-	-	-	2	-	-
	----------------------------------------------------------------GCATGACACCATACTGGG----------------------------	18	2	-	-	-	-	-	-	2	-
	----------------------------------------------------------------GCATGACACCATACTGGGT---------------------------	19	-	-	-	-	-	-	-	3	-
	-----------------------------------------------------------------CATGACACCATACTGGGTAGA------------------------	21	2	-	-	-	-	-	-	1	-
	----------------------------------------------------------------GCATGACACCATACTGGGTAG-------------------------	21	-	-	-	-	-	-	1	1	-
	---------------------------------------------------------------TGCATGACACCATACTGGGTAGAG-----------------------	24	-	-	-	-	-	-	-	1	1
	----------------------------------------------------------------GCATGACACCATACTGGGTA--------------------------	20	-	-	-	-	-	-	-	1	-
	---------------------------------------------------------------TGCATGACACCATACTGGGTA--------------------------	21	1	-	-	-	-	-	-	-	-
rat	------------------TGCAGTGCTTTATCTAGTTGGCTGTC-AGTCACGTGAAACTCAAGTGCATGACACCATACTGGGTAGAGGAGGGCTCA--------------
mouse	AATGAAAAGAGTGTTGTGTGCAATGCTTTATCTAGTTGGATGTCAAGACACGTGAAACTTAAGTGCATGACACCACACTGGGTAGAGGAGGGCTCACAGTGTTCCTCATT
	**** **************** **** ** *********** *************** ********************
	.....                  >>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>              .....	ENSRNOT00000062952 ENSRNOG00000041199 rno-mir-878
rat	.((..(.((((((((((((((.(((( (..(((.((.....)).)))..)))))))).))))))))))).)..))...	1.000 -30.70
mouse	(((((...(((..(((((.((....((((((((((((((.(((((...(((...........)))..)))))))).)))))))))))....)).)))))..))).)))))	0.986 -39.40

rat	chromosome:X:152851739:152851815:-1	Same_strand|Exonic_non-coding|ENSRNOT00000062952|ENSRNOG00000041199 ## ENSRNOG00000041199|miRNA|rno-mir-878|rno-mir-878 [Source:miRBase;Acc:MI0006120] ## {MIR: rno-mir-878}
mouse	chromosome:X:64054669:64054778:-1	Same_strand|Boundary_non-coding|ENSMUST00000104680|ENSMUSG00000077872|miRNA|mmu-mir-878 [Source:miRBase;Acc:MI0005548] ## {MIR: mmu-mir-878}

rno-mir-214

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-214 3arm	91	76	390	360	1105	622	1361	1851	1386	1107
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-214 3arm	0.003	0.003	0.021	0.021	0.054	0.047	0.106	0.097	0.091	0.074

sblock3910 (miRBase rno-mir-214) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-214

0.001

no

no

0.44/0.67

18/25/0.70

0.0 0.0 0.0 0.0 0.0

0.0 0.0 0.8 0.9 0.0

4 197 4 4862 1

0 0 0 0 0

3 10 4 10 1

0 0 0 0 0

12 29 40 18 10

-26 -43 -15 4 12

loop loop 3arm_loop 3arm 3arm

1 1 1 1 1

nd nd nd nd nd

0.17 0.17 0.68 0.15 0.14

1 3 13 3 2

8694

10

na

na

Families

Member of family miR-214 (seed CAGCAGG): rno-mir-214, block2314394_cand

		reads	miRBase family seed
seed	-----------------------------------------------------------------------CAGCAGG--------------------------------	7270	miR-214
seed	----------------------------------------------------------------------ACAGCAG---------------------------------	998	novel
seed	------------------------------GCCUGUC-------------------------------------------------------------------------	312	novel
seed	---------------------------------------------------------------------UACAGCA----------------------------------	53	novel
seed	-------------------------------CCUGUCU------------------------------------------------------------------------	25	novel
seed	------------------------------------------------------------------------AGCAGGC-------------------------------	22	novel
seed	-------------AGAGUUG------------------------------------------------------------------------------------------	6	novel
seed	----------------------------------------------------GAACAUC---------------------------------------------------	4	novel
seed	-------------------------------------------------------------------------GCAGGCA------------------------------	1	novel
seed	--------------------------------CUGUCUA-----------------------------------------------------------------------	1	novel
seed	-------------------------------------------------------------------------------ACAGACA------------------------	1	novel
seed	----------------------------CUGCCUG---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCA--------------------	20	24	17	101	84	239	150	388	474	399	239
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCAGT------------------	22	14	12	94	59	182	125	244	286	287	277
rno-miR-214	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCAG-------------------	21	14	15	71	67	230	126	261	317	275	171
	----------------------------------------------------------------------ACAGCAGGCACAGACAGG----------------------	18	11	11	33	48	108	69	142	249	116	132
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGC---------------------	19	11	2	29	33	100	47	118	194	87	99
	---------------------------------------------------------------------TACAGCAGGCACAGACAG-----------------------	18	3	12	15	16	76	39	55	115	71	53
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCAGTC-----------------	23	8	3	15	16	68	32	75	71	35	53
	-----------------------------TGCCTGTCTACACTTGCT---------------------------------------------------------------	18	4	2	13	8	37	21	29	48	38	24
	---------------------------------------------------------------------TACAGCAGGCACAGACAGG----------------------	19	2	-	11	8	26	7	20	45	33	26
	---------------------------------------------------------------------TACAGCAGGCACAGACAGGCA--------------------	21	1	1	8	8	18	10	16	38	26	20
	---------------------------------------------------------------------TACAGCAGGCACAGACAGGCAG-------------------	22	1	-	6	6	9	4	12	14	15	15
	---------------------------------------------------------------------TACAGCAGGCACAGACAGGCAGT------------------	23	-	1	4	4	7	3	7	9	15	4
	-----------------------------TGCCTGTCTACACTTGCTG--------------------------------------------------------------	19	-	-	1	2	8	5	3	14	6	14
	---------------------------------------------------------------------TACAGCAGGCACAGACAGGC---------------------	20	-	-	-	3	8	3	9	13	9	5
	---------------------------------------------------------------------TACAGCAGGCACAGACAGGCAGTC-----------------	24	-	-	1	2	9	1	4	2	9	5
	-----------------------------TGCCTGTCTACACTTGCTGTG------------------------------------------------------------	21	-	-	1	3	4	3	2	4	5	9
	--------------------------------------------------------------------GTACAGCAGGCACAGACAG-----------------------	19	-	-	1	3	6	2	3	4	3	3
	------------------------------GCCTGTCTACACTTGCTG--------------------------------------------------------------	18	-	-	-	-	3	1	-	2	1	7
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCAGTCAC---------------	25	-	-	-	-	-	1	1	6	-	1
	--------------------------------------------------------------------GTACAGCAGGCACAGACA------------------------	18	-	-	-	-	3	-	1	4	1	-
	------------------------------GCCTGTCTACACTTGCTGTG------------------------------------------------------------	20	-	-	-	1	1	1	2	2	-	1
	-----------------------------------------------------------------------CAGCAGGCACAGACAGGCA--------------------	19	1	-	-	-	3	-	-	2	1	1
	--------------------------------------------------------------------GTACAGCAGGCACAGACAGGCA--------------------	22	-	-	-	-	5	1	-	1	1	-
	--------------------------------------------------------------------GTACAGCAGGCACAGACAGG----------------------	20	-	2	-	-	2	-	-	2	-	-
	-----------------------------------------------------------------------CAGCAGGCACAGACAGGCAGT------------------	21	-	-	-	1	1	1	-	-	-	3
	------------CAGAGTTGTCATGTGTCT--------------------------------------------------------------------------------	18	-	-	-	-	-	-	1	4	1	-
	----------------------------------------------------------------------ACAGCAGGCACAGACAGGCAGTCA----------------	24	1	-	-	-	1	1	1	-	-	-
	-----------------------------TGCCTGTCTACACTTGCTGT-------------------------------------------------------------	20	-	-	1	-	-	1	-	1	-	1
	-----------------------------------------------------------------------CAGCAGGCACAGACAGGCAG-------------------	20	-	-	-	-	-	-	3	1	-	-
	------------------------------GCCTGTCTACACTTGCTGT-------------------------------------------------------------	19	-	-	-	-	2	-	-	-	-	1
	---------------------------------------------------AGAACATCCGCTCACCTGT----------------------------------------	19	-	-	-	-	1	-	1	1	-	-
	--------------------------------------------------------------------GTACAGCAGGCACAGACAGGCAG-------------------	23	-	-	-	1	1	-	-	-	-	-
	-----------------------------------------------------------------------CAGCAGGCACAGACAGGC---------------------	18	-	-	-	-	-	-	-	1	1	-
	--------------------------------------------------------------------GTACAGCAGGCACAGACAGGC---------------------	21	-	-	-	1	-	-	-	-	1	-
	-----------------------------------------------------------------------CAGCAGGCACAGACAGGCAGTC-----------------	22	-	-	-	-	-	-	-	1	1	-
	------------------------------------------------------------------------------CACAGACAGGCAGTCACATGAC----------	22	-	-	-	-	-	-	-	1	-	-
	------------------------------------------------------------------------AGCAGGCACAGACAGGCAGTC-----------------	21	-	-	-	-	1	-	-	-	-	-
	-------------------------------CCTGTCTACACTTGCTGTG------------------------------------------------------------	19	-	-	-	-	1	-	-	-	-	-
	---------------------------TCTGCCTGTCTACACTTG-----------------------------------------------------------------	18	-	-	-	-	1	-	-	-	-	-
	--------------------------------------------------------------------GTACAGCAGGCACAGACAGGCAGTC-----------------	25	-	-	-	-	1	-	-	-	-	-
	---------------------------------------------------AGAACATCCGCTCACCTG-----------------------------------------	18	-	-	1	-	-	-	-	-	-	-
rat	GTCCTGGATGGACAGAGTTGTCATGTGTCTGCCTGTCTACACTTGCTGTGCAGAACATCCGCTCACCTGTACAGCAGGCACAGACAGGCAGTCACATGACAACCCAGCCT
human	-----GGCTGGACAGAGTTGTCATGTGTCTGCCTGTCTACACTTGCTGTGCAGAACATCCGCTCACCTGTACAGCAGGCACAGACAGGCAGTCACATGACAAC-------
mouse	---------------------------TCTGCCTGTCTACACTTGCTGTGCAGAACATCCGCTCACCTGTACAGCAGGCACAGACAGGCAGT------------------
	*****************************************************************
	------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000047799 ENSRNOG00000026490 Dnm3
	------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000041058 ENSRNOG00000026490 Dnm3
	------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000011110 ENSRNOG00000026490 Dnm3
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000053636 ENSRNOG00000035513 rno-mir-214
rat	((((.....)))).(.(((((((((((.((((((((((...((((((((((((.............))))))))))))...)))))))))).))))))))))).).....	1.000 -63.62
human	...........(((((((((((.((((((((((...((((((((((((.............))))))))))))...)))))))))).)))))))))))	0.865 -56.42
mouse	.((((((((((...((((((((((((.............))))))))))))...)))))))))).	1.000 -36.82

rat	chromosome:13:77916185:77916294:1	Opposite_strand|Intronic_coding|ENSRNOT00000011110|ENSRNOG00000026490 ## Same_strand|Exonic_non-coding|ENSRNOT00000053636|ENSRNOG00000035513 ## ENSRNOG00000035513|miRNA|rno-mir-214|rno-mir-214 [Source:miRBase;Acc:MI0000954] ## ENSRNOG00000026490|protein_coding|Dnm3|Dynamin-3 (EC 3.6.5.5) (Dynamin, testicular) (T-dynamin). [Source:UniProtKB/Swiss-Prot;Acc:Q08877] ## {MIR: rno-mir-214}
human	chromosome:1:170374568:170374665:-1	Opposite_strand|Intronic_coding|ENST00000358155|ENSG00000197959|protein_coding|Dynamin-3 (EC 3.6.5.5)(Dynamin, testicular)(T-dynamin) [Source:UniProtKB/Swiss-Prot;Acc:Q9UQ16] ## Opposite_strand|Boundary_non-coding|ENST00000367733|ENSG00000197959|protein_coding|Dynamin-3 (EC 3.6.5.5)(Dynamin, testicular)(T-dynamin) [Source:UniProtKB/Swiss-Prot;Acc:Q9UQ16] ## Same_strand|Exonic_non-coding|ENST00000385214|ENSG00000207949|miRNA|hsa-mir-214 [Source:miRBase;Acc:MI0000290] ## {MIR: hsa-mir-214}
mouse	chromosome:1:164153479:164153628:1	Opposite_strand|Intronic_coding|ENSMUST00000086074|ENSMUSG00000040265|protein_coding|dynamin 3 Gene [Source:MGI Symbol;Acc:MGI:1341299] ## Same_strand|Boundary_non-coding|ENSMUST00000083582|ENSMUSG00000065516|miRNA|mmu-mir-214 [Source:miRBase;Acc:MI0000698] ## {MIR: mmu-mir-214}

miRNAknown_cloningHIGH_multiarm_DicerOK (2 loci)

rno-mir-25

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-25 5arm	265	180	50	47	296	171	27	105	49	76
rno-mir-25 3arm	916	659	1025	1144	6043	4891	1020	1464	1184	1787
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-25 5arm	0.009	0.008	0.003	0.003	0.014	0.013	0.002	0.006	0.003	0.005
rno-mir-25 3arm	0.030	0.029	0.056	0.068	0.294	0.371	0.079	0.077	0.078	0.119

sblock3238 (miRBase rno-mir-25) [miRNAknown_cloningHIGH_multiarm_DicerOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-25

0.036

no

no

0.47/0.67

18/25/0.71

0.0 0.0

0.9 1.7

683 8794

0 0

10 10

0 0

13 10

2 6

5arm 3arm

1 1

nd nd

0.17 0.16

1 1

21399

10

2

3

Clusters

Located in cluster 19: rno-mir-25, block187071_cand, rno-mir-93, rno-mir-106b

Families

Member of family miR-25/32/363/92a/92b (seed AUUGCAC): rno-mir-25, rno-mir-363, rno-mir-92a, rno-mir-92b, rno-mir-32, rno-mir-92a

		reads	miRBase family seed
seed	----------------------------------------------------AUUGCAC-------------------------	19876	miR-25/32/363/92a/92b
seed	--------------GGCGGAG---------------------------------------------------------------	1263	miR-25*
seed	-----------------------------------------------------UUGCACU------------------------	248	novel
seed	-------------------------------------------------------GCACUUG----------------------	4	novel
seed	---------------GCGGAGA--------------------------------------------------------------	3	novel
seed	---------------------------------------------------CAUUGCA--------------------------	3	novel
seed	------------------------------------------------------UGCACUU-----------------------	1	novel
seed	--------------------------------------------------------CACUUGU---------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	---------------------------------------------------CATTGCACTTGTCTCGGTCTGAC----------	23	291	168	206	170	1850	1907	127	175	452	504
	---------------------------------------------------CATTGCACTTGTCTCGGTCTG------------	21	172	160	277	377	1339	1067	405	551	232	437
	---------------------------------------------------CATTGCACTTGTCTCGGTC--------------	19	168	132	188	273	1166	818	193	249	182	350
	---------------------------------------------------CATTGCACTTGTCTCGGTCT-------------	20	76	56	140	137	647	397	124	231	106	194
	---------------------------------------------------CATTGCACTTGTCTCGGT---------------	18	99	72	61	90	519	355	60	121	76	159
rno-miR-25	---------------------------------------------------CATTGCACTTGTCTCGGTCTGA-----------	22	76	47	138	81	447	289	88	118	120	121
	-------------AGGCGGAGACACGGGCAA-----------------------------------------------------	18	104	81	19	11	137	91	10	52	26	36
	-------------AGGCGGAGACACGGGCAAT----------------------------------------------------	19	66	38	16	12	56	33	5	21	11	11
	-------------AGGCGGAGACACGGGCAATTGCT------------------------------------------------	23	51	25	4	11	45	24	2	7	1	11
	----------------------------------------------------ATTGCACTTGTCTCGGTCTGAC----------	22	13	10	9	7	41	16	6	11	7	5
	-------------AGGCGGAGACACGGGCAATT---------------------------------------------------	20	23	10	4	9	32	11	5	14	8	5
rno-miR-25*	-------------AGGCGGAGACACGGGCAATTGC-------------------------------------------------	22	9	11	5	2	12	10	2	8	1	7
	-------------AGGCGGAGACACGGGCAATTG--------------------------------------------------	21	11	14	2	2	13	2	3	3	2	6
	----------------------------------------------------ATTGCACTTGTCTCGGTC--------------	18	5	3	-	4	8	14	3	6	1	5
	---------------------------------------------------CATTGCACTTGTCTCGGTCTGACA---------	24	2	1	1	3	15	7	5	-	2	8
	----------------------------------------------------ATTGCACTTGTCTCGGTCTG------------	20	3	4	3	1	7	5	8	-	3	1
	----------------------------------------------------ATTGCACTTGTCTCGGTCT-------------	19	8	4	-	-	2	6	1	2	-	2
	----------------------------------------------------ATTGCACTTGTCTCGGTCTGA-----------	21	1	-	2	-	2	7	-	-	1	1
	------------------------------------------------------TGCACTTGTCTCGGTCTG------------	18	2	-	-	-	-	-	-	-	-	-
	------------------------------------------------------TGCACTTGTCTCGGTCTGAC----------	20	-	-	-	-	-	1	-	-	1	-
	--------------------------------------------------GCATTGCACTTGTCTCGG----------------	18	-	-	-	-	-	-	-	-	1	-
	--------------GGCGGAGACACGGGCAATTGCT------------------------------------------------	22	-	1	-	-	-	-	-	-	-	-
	-----------------------------------------------------TTGCACTTGTCTCGGTCTG------------	19	-	-	-	-	-	1	-	-	-	-
	-------------------------------------------------------GCACTTGTCTCGGTCTGA-----------	18	-	1	-	-	-	-	-	-	-	-
	---------------------------------------------------CATTGCACTTGTCTCGGTCTGACAG--------	25	-	1	-	-	-	-	-	-	-	-
	--------------GGCGGAGACACGGGCAATT---------------------------------------------------	19	-	-	-	-	1	-	-	-	-	-
	--------------GGCGGAGACACGGGCAAT----------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	--------------------------------------------------GCATTGCACTTGTCTCGGTCTG------------	22	-	-	-	1	-	-	-	-	-	-
	--------------------------------------------------GCATTGCACTTGTCTCGGTC--------------	20	-	-	-	-	-	1	-	-	-	-
rat	GGCCAGTGTTGAGAGGCGGAGACACGGGCAATTGCTGGACGCTGCCCTGGGCATTGCACTTGTCTCGGTCTGACAGTGCCGGCC
human	-----------AGAGGCGGAGACTTGGGCAATTGCTGGACGCTGCCCTGGGCATTGCACTTGTCTCGGTCTGA-----------
mouse	--------TTGAGAGGCGGAGACTTGGGCAATTGCTGGACGCTGCCCTGGGCATTGCACTTGTCTCGGTCTGA-----------
	************  ************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000001825 ENSRNOG00000001349 Mcm7
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000053654 ENSRNOG00000035531 rno-mir-25
rat	((((.(..(((..((((.((((((.(.(((((.(((((.......))..)))))))).).)))))).))))..)))..).))))	1.000 -38.40
human	..((((.(((((..((((((.((((((.......))..)))))))).)).))))).))))..	0.953 -23.70
mouse	.....((((.(((((..((((((.((((((.......))..)))))))).)).))))).))))..	0.953 -23.70

rat	chromosome:12:17607970:17608053:-1	Same_strand|Exonic_non-coding|ENSRNOT00000053654|ENSRNOG00000035531 ## Same_strand|Intronic_coding|ENSRNOT00000001825|ENSRNOG00000001349 ## ENSRNOG00000035531|miRNA|rno-mir-25|rno-mir-25 [Source:miRBase;Acc:MI0000856] ## ENSRNOG00000001349|protein_coding|Mcm7|minichromosome maintenance complex component 7 [Source:RefSeq_peptide;Acc:NP_001004203] ## {MIR: rno-mir-25}
human	chromosome:7:99529099:99529222:-1	Same_strand|Boundary_non-coding|ENST00000354230|ENSG00000166508|protein_coding|DNA replication licensing factor MCM7 (CDC47 homolog)(P1.1-MCM3) [Source:UniProtKB/Swiss-Prot;Acc:P33993] ## Same_strand|Intronic_coding|ENST00000362082|ENSG00000166508|protein_coding|DNA replication licensing factor MCM7 (CDC47 homolog)(P1.1-MCM3) [Source:UniProtKB/Swiss-Prot;Acc:P33993] ## {Repeats: dust 0 class=dust} ## {MIR: hsa-mir-25}
mouse	chromosome:5:138606529:138606652:-1	Same_strand|Intronic_coding|ENSMUST00000000505|ENSMUSG00000029730|protein_coding|minichromosome maintenance deficient 7 (S. cerevisiae) Gene [Source:MGI Symbol;Acc:MGI:1298398] ## Same_strand|Boundary_non-coding|ENSMUST00000083460|ENSMUSG00000065394|miRNA|mmu-mir-25 [Source:miRBase;Acc:MI0000689] ## {MIR: mmu-mir-25}

rno-mir-183

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-183 5arm	682	16	165	90	13	21	5	3	198	390
rno-mir-183 3arm	92	3	25	8	3	2	0	0	36	45
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-183 5arm	0.023	0.001	0.009	0.005	0.001	0.002	0.000	0.000	0.013	0.026
rno-mir-183 3arm	0.003	0.000	0.001	0.000	0.000	0.000	0	0	0.002	0.003

sblock8381 (miRBase rno-mir-183) [miRNAknown_cloningHIGH_multiarm_DicerOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-183

0.016

no

no

0.39/0.56

18/24/0.76

0.3 0.1

0.7 1.6

704 110

0 0

10 8

0 0

26 23

3 7

5arm 3arm

1 1

nd nd

0.17 0.21

2 4

1797

10

2

1

Clusters

Located in cluster 50: rno-mir-96, rno-mir-183

		reads	miRBase family seed
seed	---------------------------------------AUGGCAC---------------------------------------------------------------------------------------------	1005	miR-183
seed	----------------------------------------UGGCACU--------------------------------------------------------------------------------------------	577	novel
seed	-------------------------------------------------------------------------------GAAUUAC-----------------------------------------------------	165	novel
seed	------------------------------------------------------------------------------UGAAUUA------------------------------------------------------	42	novel
seed	--------------------------------------------------------------------------------AAUUACC----------------------------------------------------	6	novel
seed	-----------------------------------------GGCACUG-------------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------------------GUGAAUU-------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-183	--------------------------------------TATGGCACTGGTAGAATTCACT-------------------------------------------------------------------------------	22	139	2	26	11	1	3	-	-	16	79
	---------------------------------------ATGGCACTGGTAGAATTCACTG------------------------------------------------------------------------------	22	114	7	15	9	3	3	1	-	35	63
	--------------------------------------TATGGCACTGGTAGAATTCACTG------------------------------------------------------------------------------	23	71	-	32	16	4	1	1	-	36	60
	--------------------------------------TATGGCACTGGTAGAATTCA---------------------------------------------------------------------------------	20	62	-	9	5	-	2	1	-	29	24
	--------------------------------------TATGGCACTGGTAGAATTCAC--------------------------------------------------------------------------------	21	60	1	19	10	-	2	-	-	9	20
	--------------------------------------TATGGCACTGGTAGAATTC----------------------------------------------------------------------------------	19	40	1	14	3	3	-	-	1	18	36
	---------------------------------------ATGGCACTGGTAGAATTCACT-------------------------------------------------------------------------------	21	56	1	3	7	-	2	1	1	7	19
	--------------------------------------TATGGCACTGGTAGAATT-----------------------------------------------------------------------------------	18	34	-	10	9	-	3	-	-	15	24
	---------------------------------------ATGGCACTGGTAGAATTCAC--------------------------------------------------------------------------------	20	36	-	3	1	1	-	1	-	10	17
	------------------------------------------------------------------------------TGAATTACCGAAGGGCCATAA----------------------------------------	21	33	-	7	2	1	1	-	-	17	5
	------------------------------------------------------------------------------TGAATTACCGAAGGGCCA-------------------------------------------	18	21	1	10	5	2	1	-	-	5	18
	---------------------------------------ATGGCACTGGTAGAATTCA---------------------------------------------------------------------------------	19	23	1	7	3	-	-	-	1	11	11
	---------------------------------------ATGGCACTGGTAGAATTC----------------------------------------------------------------------------------	18	30	-	6	2	-	1	-	-	5	11
	---------------------------------------ATGGCACTGGTAGAATTCACTGT-----------------------------------------------------------------------------	23	12	3	4	3	1	4	-	-	5	15
	--------------------------------------TATGGCACTGGTAGAATTCACTGT-----------------------------------------------------------------------------	24	3	-	17	11	-	-	-	-	2	10
	-----------------------------------------------------------------------------GTGAATTACCGAAGGGCCA-------------------------------------------	19	11	-	2	-	-	-	-	-	2	7
	------------------------------------------------------------------------------TGAATTACCGAAGGGCCAT------------------------------------------	19	5	-	3	-	-	-	-	-	5	8
	------------------------------------------------------------------------------TGAATTACCGAAGGGCCATA-----------------------------------------	20	7	-	-	-	-	-	-	-	1	4
	-----------------------------------------------------------------------------GTGAATTACCGAAGGGCCATAA----------------------------------------	22	7	2	-	-	-	-	-	-	2	-
	-------------------------------------------------------------------------------GAATTACCGAAGGGCCATAA----------------------------------------	20	4	-	2	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------GTGAATTACCGAAGGGCCATA-----------------------------------------	21	2	-	1	-	-	-	-	-	-	-
	------------------------------------------------------------------------------TGAATTACCGAAGGGCCATAAAC--------------------------------------	23	1	-	-	-	-	-	-	-	2	-
	-----------------------------------------------------------------------------GTGAATTACCGAAGGGCC--------------------------------------------	18	1	-	-	1	-	-	-	-	1	-
	-----------------------------------------------------------------------------GTGAATTACCGAAGGGCCAT------------------------------------------	20	-	-	-	-	-	-	-	-	1	2
	---------------------------------------ATGGCACTGGTAGAATTCACTGTG----------------------------------------------------------------------------	24	1	-	-	-	-	-	-	-	-	1
	----------------------------------------TGGCACTGGTAGAATTCACTG------------------------------------------------------------------------------	21	1	-	-	-	-	-	-	-	-	-
	----------------------------------------------------------------------------AGTGAATTACCGAAGGGC---------------------------------------------	18	-	-	-	-	-	-	-	-	-	1
rat	------------CCAGAGAGTGTGACTCCTGTCCTGTGTATGGCACTGGTAGAATTCACTGTGAACAGTCTCGGTCAGTGAATTACCGAAGGGCCATAAACAGAGCAGAGACAGATCCGCGA-----------------
human	AGGGTCGGCAGGCCGCAGAGTGTGACTCCTGTTCTGTGTATGGCACTGGTAGAATTCACTGTGAACAGTCTCAGTCAGTGAATTACCGAAGGGCCATAAACAGAGCAGAGACAGATCCACGAGGGCCTCCGGAGCACCT
mouse	----------------------------CTGTCCTGTGTATGGCACTGGTAGAATTCACTGTGAACAGTCTCAGTCAGTGAATTACCGAAGGGCCATAAACAGAGCAGAGACAGATCC---------------------
	**** *************************************** *********************************************
	.....            >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                 .....	ENSRNOT00000053574 ENSRNOG00000035451 rno-mir-183
rat	...(.(..(.((.(((.((..((((.((((((..(((((..(((((((((((......)))..)))))))))))))....)))))).))))..))))).)).)..).)..	1.000 -37.40
human	(((.((((.(((((.....(((.((.(((((((((((.((((((..(((((..(((((((((((......)))..)))))))))))))....)))))).))))))))).))....)))))...)))))))))....)))	0.967 -58.80
mouse	(((((((((.((((((..(((((..(((((((((((......)))..)))))))))))))....))))))......)))).)))))....	0.988 -34.40

rat	chromosome:4:57075094:57075203:-1	Same_strand|Exonic_non-coding|ENSRNOT00000053574|ENSRNOG00000035451 ## ENSRNOG00000035451|miRNA|rno-mir-183|rno-mir-183 [Source:miRBase;Acc:MI0000928] ## {MIR: rno-mir-183}
human	chromosome:7:129201964:129202102:-1	Same_strand|Boundary_non-coding|ENST00000384958|ENSG00000207691|miRNA|hsa-mir-183 [Source:miRBase;Acc:MI0000273] ## {MIR: hsa-mir-183}
mouse	chromosome:6:30119653:30119742:-1	Same_strand|Boundary_non-coding|ENSMUST00000083685|ENSMUSG00000065619|miRNA|mmu-mir-183 [Source:miRBase;Acc:MI0000225] ## {MIR: mmu-mir-183}

miRNAknown_cloningOK_multiarm_DicerOK_randfoldOK (2 loci)

rno-mir-471

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-471 5arm	0	3	0	0	0	0	0	0	2	0
rno-mir-471 3arm	3	0	0	0	0	0	0	0	3	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-471 5arm	0	0.000	0	0	0	0	0	0	0.000	0
rno-mir-471 3arm	0.000	0	0	0	0	0	0	0	0.000	0

sblock12735 (miRBase rno-mir-471) [miRNAknown_cloningOK_multiarm_DicerOK_randfoldOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-471

0.001

no

no

0.32/0.42

19/23/0.75

0.0 0.3

1.0 1.5

5 6

0 0

2 2

0 0

10 10

3 4

5arm 3arm

1 1

nd nd

0.14 0.15

2 2

11

3

1

2

		reads	miRBase family seed
seed	-------------------------ACGUAGU------------------------------------------------------------------------	5	miR-471
seed	------------------------------------------------------------GAAAGGU-------------------------------------	4	novel
seed	-------------------------------------------------------------AAAGGUG------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	-----------------------------------------------------------TGAAAGGTGCCATACTATG--------------------------	19	2	-	-
	------------------------TACGTAGTATAGTGCTTTTCA-----------------------------------------------------------	21	-	1	1
	------------------------------------------------------------GAAAGGTGCCATACTATGTA------------------------	20	1	-	1
rno-miR-471	------------------------TACGTAGTATAGTGCTTTTCAC----------------------------------------------------------	22	-	2	-
	-----------------------------------------------------------TGAAAGGTGCCATACTATGTACA----------------------	23	-	-	1
	-----------------------------------------------------------TGAAAGGTGCCATACTATGT-------------------------	20	-	-	1
	------------------------TACGTAGTATAGTGCTTTT-------------------------------------------------------------	19	-	-	1
rat	--------------AGCAGTGCTTTACGTAGTATAGTGCTTTTCACATTACACAAAAAGTGAAAGGTGCCATACTATGTACAGGAAGGCTTA------------
mouse	TGAAGAATATTGTGAGCAGTGCTTTACGTAGTATAGTGCTTTTCACATTAAACAAAAAGTGAAAGGTGCCATACTATGTATAGGAAGGCTTACCATGTTCCTCA
	************************************ ***************************** ***********
	.....              >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>            .....	ENSRNOT00000054387 ENSRNOG00000036264 rno-mir-471
rat	(((..(.((.((((((((((.(..((((((((.((......)).))))))))..).)))))))))).)).)..)))..	1.000 -30.90
mouse	.((.((((((.((((((....((.((((((((((.(((((((((((.((......)).))))))))))).)))))))))).))....)))))).)))))).)).	1.000 -42.10

rat	chromosome:X:152840380:152840457:-1	Same_strand|Exonic_non-coding|ENSRNOT00000054387|ENSRNOG00000036264 ## ENSRNOG00000036264|miRNA|rno-mir-471|rno-mir-471 [Source:miRBase;Acc:MI0006150] ## {MIR: rno-mir-471}
mouse	chromosome:X:64045751:64045854:-1	Same_strand|Boundary_non-coding|ENSMUST00000093596|ENSMUSG00000070104|miRNA|mmu-mir-471 [Source:miRBase;Acc:MI0002406] ## {MIR: mmu-mir-471}

rno-mir-336

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-336 5arm	7	2	0	0	0	0	0	0	0	0
rno-mir-336 3arm	0	1	0	0	0	0	0	0	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-336 5arm	0.000	0.000	0	0	0	0	0	0	0	0
rno-mir-336 3arm	0	0.000	0	0	0	0	0	0	0	0

sblock2616 (miRBase rno-mir-336) [miRNAknown_cloningOK_multiarm_DicerOK_randfoldOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-336

0.002

no

no

0.43/0.46

18/24/0.82

0.0 0.0

1.3 0.0

6 1

0 0

2 1

0 0

15 21

0 4

5arm 3arm

1 1

nd nd

0.17 0.29

3 5

10

2

3

2

		reads	miRBase family seed
seed	----------------CACCCUU-------------------------------------------------------------------------	9	miR-336
seed	----------------------------------------------------CUGGAUU-------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	---------------TCACCCTTCCATATCTAGTCTC-----------------------------------------------------------	22	4	1
	---------------TCACCCTTCCATATCTAGTC-------------------------------------------------------------	20	1	1
	---------------TCACCCTTCCATATCTAG---------------------------------------------------------------	18	2	-
	---------------------------------------------------ACTGGATTCCATGAAGGGATGTGA---------------------	24	-	1
rno-miR-336	---------------TCACCCTTCCATATCTAGTCT------------------------------------------------------------	21	-	-
rat	atgtgaccgtgcctcTCACCCTTCCATATCTAGTCTCtgagaaaaatgaagactggattccatgaagggatgtgaggcctggaaactggagcttta
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050801 ENSRNOG00000002823 Mapk9
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003987 ENSRNOG00000002823 Mapk9
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000004010 ENSRNOG00000002823 Mapk9
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059297 ENSRNOG00000002823 Mapk9
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000053582 ENSRNOG00000035459 rno-mir-336
rat	..((..(((.(((((.((((((((...((((((((((..........).))))))))).....)))))).)).))))).)))..))..........	1.000 -36.10

rat

chromosome:10:35360536:35360631:1

Same_strand|Intronic_coding|ENSRNOT00000050801|ENSRNOG00000002823 ## Same_strand|Exonic_non-coding|ENSRNOT00000053582|ENSRNOG00000035459 ## ENSRNOG00000035459|miRNA|rno-mir-336|rno-mir-336 [Source:miRBase;Acc:MI0000613] ## ENSRNOG00000002823|protein_coding|Mapk9|Mitogen-activated protein kinase 9 (EC 2.7.11.24) (Stress-activated protein kinase JNK2) (c-Jun N-terminal kinase 2) (SAPK-alpha) (p54- alpha). [Source:UniProtKB/Swiss-Prot;Acc:P49186] ## {MIR: rno-mir-336}

miRNAknown_cloningOK_randfoldOK (1 loci)

rno-mir-883

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-883 3arm	1	2	1	0	0.500	0	1	0	25	7
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-883 3arm	0.000	0.000	0.000	0	0.000	0	0.000	0	0.002	0.000

block2895905 (miRBase rno-mir-883) [miRNAknown_cloningOK_randfoldOK]

Hairpin parameters

miRNA

randfold

RNA

rep

GC min/max

len min/max/mir_range

5'var

3'var

reads

reads edited

libs

libs edited

base distance

loop distance

position

locations

exon distance

unpaired

max bulge

total reads

total libs

dicer

drosha

miRBase rno-mir-883

0.001

no

no

0.35/0.44

18/23/0.77

0.3

1.0

30

0

7

0

9

3

3arm

1

nd

0.09

1

38

7

na

na

Clusters

Located in cluster 90: rno-mir-742, rno-mir-883

		reads	miRBase family seed
seed	------------------------------------------------------AACUGCA---------------------------------------	27	miR-883
seed	-------------------------------------------------------ACUGCAA--------------------------------------	11	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T4S1	T5S1	T5S2
rno-miR-883	-----------------------------------------------------TAACTGCAACATCTCTCAGTAT-------------------------	22	1	1	-	-	-	5	2
	-----------------------------------------------------TAACTGCAACATCTCTCAGTATT------------------------	23	-	-	-	-	-	4	3
	-----------------------------------------------------TAACTGCAACATCTCTCAG----------------------------	19	-	-	1	-	1	1	2
	------------------------------------------------------AACTGCAACATCTCTCAGTA--------------------------	20	-	-	-	-	-	4	-
	-----------------------------------------------------TAACTGCAACATCTCTCAGT---------------------------	20	-	1	-	-	-	2	-
	-----------------------------------------------------TAACTGCAACATCTCTCAGTA--------------------------	21	-	-	-	-	-	2	-
	------------------------------------------------------AACTGCAACATCTCTCAGTATT------------------------	22	-	-	-	-	-	2	-
	------------------------------------------------------AACTGCAACATCTCTCAGTAT-------------------------	21	-	-	-	-	-	2	-
	------------------------------------------------------AACTGCAACATCTCTCAGT---------------------------	19	-	-	-	-	-	2	-
	------------------------------------------------------AACTGCAACATCTCTCAG----------------------------	18	-	-	-	1	-	-	-
	-----------------------------------------------------TAACTGCAACATCTCTCA-----------------------------	18	-	-	-	-	-	1	-
rat	-------TGCACT-CAATGCTGAGAGAAGTAGCAGTTACTTTTTACTCTTAAGTAACTGCAACATCTCTCAGTATTGTAAGGCTC---------------
mouse	ATTCGTGTGCACTATAATGCTGAGAGAAGTAGCAGTTACTTTATTCTA-TAAGTAACTGCAACAGCTCTCAGTATTGTAAGGCTCAACAAACGCAGGGAT
	******  *************************** * **  *************** ********************
	.....       >>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>               .....	ENSRNOT00000063041 ENSRNOG00000041288 rno-mir-883
rat	.((... (((((((((((((.((.((((((((((.........)))))))))).)).)))))))))))))....))..	1.000 -38.50
mouse	((((.(((((..((((((((((((((..((.((((((((((....... .)))))))))).))..))))))))))))))..)).........))).))))	0.999 -41.70

rat	chromosome:X:152829659:152829735:-1	Same_strand|Exonic_non-coding|ENSRNOT00000063041|ENSRNOG00000041288 ## ENSRNOG00000041288|miRNA|rno-mir-883|rno-mir-883 [Source:miRBase;Acc:MI0006126] ## {MIR: rno-mir-883}
mouse	chromosome:X:64033918:64034016:-1	Same_strand|Boundary_non-coding|ENSMUST00000104824|ENSMUSG00000078017|miRNA|mmu-mir-883a [Source:miRBase;Acc:MI0005476] ## {MIR: mmu-mir-883a}

Back to summary page

confident miRBase miRNAs:

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