miR-Intess™

other hairpins

novel_shortStem_loopOverlap_mirtron (2 loci)

block912940 [novel_shortStem_loopOverlap_mirtron]

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

no

0.018

no

no

0.54/0.54

24/24/1.00

0.0

0.0

1

0

1

0

2

-2

3arm_loop

1

4

0.25

2

1

1

na

na

		reads	miRBase family seed
seed	-----------------------------CACCUGA------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------TCACCTGATGTCCCATGTGGTCTC--	24	1
rat	gctgggactttagtggggctctgttcctTCACCTGATGTCCCATGTGGTCTCgc
	******************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000000599 ENSRNOG00000022289 Aip
rat	((.((((((...(((((((((.((......))..)).)))))))..))))))))	1.000 -20.80

rat

chromosome:1:206701544:206701597:-1

Same_strand|Intronic_coding|ENSRNOT00000000599|ENSRNOG00000022289 ## ENSRNOG00000022289|protein_coding|Aip|AH receptor-interacting protein (AIP) (Aryl-hydrocarbon receptor- interacting protein) (Immunophilin XAP2). [Source:UniProtKB/Swiss-Prot;Acc:Q5FWY5]

novel_shortStem_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH (2 loci)

block751815 [novel_shortStem_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH]

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

no

0.057

no

no

0.35/0.35

23/23/1.00

0.0

0.0

1

0

1

0

0

-3

3arm_loop

1

1

0.32

4

1

1

na

na

		reads	miRBase family seed
seed	--------------------------UAAGGUU---------------	1	novel
		len	cloning frequencies
			T2S1
	-------------------------GTAAGGTTGATGCTTTTATTTGG	23	1
rat	ccataacacaaagacgacaacctggGTAAGGTTGATGCTTTTATTTGG
	************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++	ENSRNOT00000023890 ENSRNOG00000017610 Q5U1Z5_RAT
rat	(((......((((.((.((((((.....)))))).))))))....)))	1.000 -11.40

rat

chromosome:18:61432854:61432901:1

Same_strand|Boundary_coding|ENSRNOT00000023890|ENSRNOG00000017610 ## ENSRNOG00000017610|protein_coding|Q5U1Z5_RAT|Nedd4l protein. [Source:UniProtKB/TrEMBL;Acc:Q5U1Z5]

block1630460 [novel_shortStem_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH]

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

no

0.218

no

no

0.50/0.50

20/20/1.00

0.0

0.0

1

0

1

0

4

-3

5arm_loop

1

3

0.50

4

1

1

na

na

		reads	miRBase family seed
seed	-----CAUUCUG------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----CCATTCTGTCTTCTGCCTCA------------------------	20	1
rat	gactCCATTCTGTCTTCTGCCTCAaaggctattgggtccaggtcagtc
	************************************************
	----------------------------------------------------------	ENSRNOT00000060844 ENSRNOG00000039671
	++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000011395 ENSRNOG00000008524 RGD1563612_predicted
rat	((((....((((..(((.(((.....)))....)))..))))..))))	0.960 -11.00

rat

chromosome:4:33645165:33645212:1

Same_strand|Intronic_coding|ENSRNOT00000011395|ENSRNOG00000008524 ## Opposite_strand|Intronic_coding|ENSRNOT00000060844|ENSRNOG00000039671 ## ENSRNOG00000039671|protein_coding|| ## ENSRNOG00000008524|protein_coding|RGD1563612_predicted|

miRNAunknown (1 loci)

block1044021 (miRNA) [miRNAunknown]

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

Ensembl miRNA

0.168

no

no

0.48/0.48

23/23/1.00

0.0

0.0

2

0

1

0

6

23

3arm

1

nd

0.26

2

2

1

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------GAUAGCC---------------------	2	novel
		len	cloning frequencies
			T5S2
	--------------------------------------------------------------------------------TGATAGCCCTGTACAATGCTGCT------	23	2
rat	gttaataaagctacatctgtcctcaggggctgccacctggggctctggctggctttggctgtagcaagctctctgtgcttTGATAGCCCTGTACAATGCTGCTtgaact
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	ENSRNOT00000025736 ENSRNOG00000018944 NP_001099843.1
	........................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000053762 ENSRNOG00000035639 rno-mir-107
rat	(((....((((..(((.(((.....(((((((.(((..((((((...((((((....)))..))).))))))..)))......)))))))..))))))..)))).))).	0.600 -33.10

rat

chromosome:1:238806768:238806876:1

Opposite_strand|Exonic_non-coding|ENSRNOT00000053762|ENSRNOG00000035639 ## Opposite_strand|Intronic_coding|ENSRNOT00000025736|ENSRNOG00000018944 ## ENSRNOG00000035639|miRNA|rno-mir-107|rno-mir-107 [Source:miRBase;Acc:MI0000890] ## ENSRNOG00000018944|protein_coding|NP_001099843.1|pantothenate kinase 1 [Source:RefSeq_peptide;Acc:NP_001099843]

miRNAunknown_Multihit_5varHIGH_randfoldOK (1 loci)

block1355657 (miRNA) [miRNAunknown_Multihit_5varHIGH_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

Ensembl miRNA

0.001

no

no

0.33/0.38

18/21/0.71

1.4

0.7

7

0

6

0

23

9

3arm

296

nd

0.05

1

7

6

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------ACACACA---------------------------------------	5	novel
seed	-------------------------------------------------------------------------------CACACAU----------------------------------	2	novel
		len	cloning frequencies
			T1S1	T2S1	T2S2	T4S1	T5S1	T5S2
	-------------------------------------------------------------------------TACACACACACATAAACACAC--------------------------	21	1	1	2	-	1	-
	------------------------------------------------------------------------------ACACACATAAACACACATG-----------------------	19	-	-	-	-	-	1
	------------------------------------------------------------------------------ACACACATAAACACACAT------------------------	18	-	-	-	1	-	-
rat	agtgctgggattgtagacgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttatgtatatattatgtgtatataTACACACACACATAAACACACATGtaagcacatactataaacaaaca
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000007906 ENSRNOG00000022015 NP_001101306.1
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000007776 ENSRNOG00000022015 NP_001101306.1
	........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................	ENSRNOT00000063061 ENSRNOG00000041308
rat	.((..((...((((((..((((((.((..(((((((.((((((((((((.(((((((((((...))))))))))))))))))))))).)))))))..)).)))))).)))))).)).)).	0.990 -54.60

rat

chromosome:3:14207814:14207933:-1

Opposite_strand|Intronic_non-coding|ENSRNOT00000007906|ENSRNOG00000022015 ## Opposite_strand|Intronic_coding|ENSRNOT00000007776|ENSRNOG00000022015 ## Same_strand|Exonic_non-coding|ENSRNOT00000063061|ENSRNOG00000041308 ## ENSRNOG00000022015|protein_coding|NP_001101306.1|centrosomal protein 1 [Source:RefSeq_peptide;Acc:NP_001101306] ## ENSRNOG00000041308|miRNA|| ## {Repeats: (TATG)n 2 96 -1 class=Simple_repeat,(TATG)n 68 92 -1 class=Simple_repeat,dust 14207837 14207861 0 class=dust}

miRNAunknown_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH (1 loci)

block2017718 (miRNA) [miRNAunknown_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH]

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

Ensembl miRNA

0.836

no

no

0.48/0.48

21/21/1.00

0.0

0.0

1

0

1

0

33

-2

3arm_loop

251

nd

0.52

4

1

1

na

na

		reads	miRBase family seed
seed	------------------------------------------------------GUGUGUG----------------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	-----------------------------------------------------TGTGTGTGTGTGTGTGTTGTC---------------------------------	21	1
rat	gtgtgtgtgtgtgtgtgtgtctgtgtgtctgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGTGTTGTCgccccagtacaagttctacacaatcaccctcac
	***********************************************************************************************************
	.................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000062991 ENSRNOG00000041238
rat	(((...(((..((((((...((.((((.(((.(((..((..((..((..((....))..))..))..))....)))..)))))))))...))))))..)))...)))	0.870 -19.20

rat

chromosome:6:50703845:50703951:1

Same_strand|Exonic_non-coding|ENSRNOT00000062991|ENSRNOG00000041238 ## ENSRNOG00000041238|miRNA|| ## {Repeats: dust 50703844 50703861 0 class=dust,(TG)n 55 72 1 class=Simple_repeat,(TG)n 2 72 1 class=Simple_repeat,trf 1 18 0 class=trf}

miRNAunknown_Multihit_randfoldOK_bulgeHIGH (1 loci)

block697185 (miRNA) [miRNAunknown_Multihit_randfoldOK_bulgeHIGH]

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

Ensembl miRNA

0.001

no

no

0.50/0.50

24/24/1.00

0.0

0.0

1

0

1

0

17

13

3arm

244

nd

0.17

4

1

1

na

na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------CACACAC---------------------------------	1	novel
		len	cloning frequencies
			T2S1
	-----------------------------------------------------------------------------ACACACACACACACACACACGATC-----------------	24	1
rat	gtgtttgagtgtttgaaatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtatacacatacacACACACACACACACACACACGATCcttcctcttagaaaaca
	**********************************************************************************************************************
	......................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.........................	ENSRNOT00000063019 ENSRNOG00000041266
rat	((.((((((.....(((.....((((((((((((((((((((((((((((((((((........))))))))))))))))))))))))))))))))))....)))..))))))..)).	0.920 -64.20

rat

chromosome:18:31776768:31776885:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000063019|ENSRNOG00000041266 ## ENSRNOG00000041266|miRNA|| ## {Repeats: trf 1 21 0 class=trf,(TG)n 2 22 -1 class=Simple_repeat,(TG)n 2 31 -1 class=Simple_repeat,dust 31776789 31776809 0 class=dust}

miRNAunknown_Multihit_randfoldOK_nonpairedHIGH (1 loci)

block2345248 (miRNA) [miRNAunknown_Multihit_randfoldOK_nonpairedHIGH]

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

Ensembl miRNA

0.001

no

no

0.50/0.50

20/20/1.00

0.0

0.0

1

0

1

0

7

31

3arm

260

nd

0.40

2

1

1

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------------UAUGUGU-------------------	1	novel
		len	cloning frequencies
			T1S1
	-------------------------------------------------------------------------------------------GTATGTGTGTGTGTGTGTGC-------	20	1
rat	tgcttgtgtgtaagtgtgtgtgcatgtgcatttgtgtgtatatgaatatatgtgtgtgtacacatgtgtatgtgcatgtatacatatatgtGTATGTGTGTGTGTGTGTGCatgtgta
	**********************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........	ENSRNOT00000063292 ENSRNOG00000041539
rat	(((.((((..((..((..((..((((..(((.((((((((((((.(((((((((((....)))))))))))...)))))))))))).)))..))))..))..))..))..)))).)))	0.900 -47.90

rat

chromosome:8:100484554:100484671:-1

Same_strand|Exonic_non-coding|ENSRNOT00000063292|ENSRNOG00000041539 ## ENSRNOG00000041539|miRNA|| ## {Repeats: dust 100484561 100484581 0 class=dust,trf 1 10 0 class=trf,(CA)n 16 36 -1 class=Simple_repeat,(CA)n 1 162 -1 class=Simple_repeat}

miRNAunknown_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH (1 loci)

block2366963 (miRNA) [miRNAunknown_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH]

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

Ensembl miRNA

0.009

no

no

0.71/0.71

21/21/1.00

0.0

0.0

1

0

1

0

17

23

3arm

15

nd

0.33

4

1

1

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------CCGUAGG------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------------------------------------------------TCCGTAGGGTGGCAGGGCCAC-----------------	21	1
rat	cctctgtgacttgttggaaagccactttctggataaggaggtgaagctcatcaagaagatgggcaaccacctgaccaaccTCCGTAGGGTGGCAGGGCCACtaccagcgcagactggc
	**********************************************************************************************************************
	............................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000054637 ENSRNOG00000036530
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000034574 ENSRNOG00000026524
rat	((((((((.((.(((((...((((((((.((((...(((((((..(((((((.....)))))))...)))))..))....)))).))))))))....)))..)).))))))))..)).	0.850 -45.80

rat

chromosome:8:125535758:125535875:-1

Same_strand|Boundary_non-coding|ENSRNOT00000054637|ENSRNOG00000036530 ## Same_strand|Exonic_non-coding|ENSRNOT00000034574|ENSRNOG00000026524 ## ENSRNOG00000026524|pseudogene|| ## ENSRNOG00000036530|miRNA||

miRNAunknown_Multihit_shortStem_nonpairedHIGH (1 loci)

block2575647 (miRNA) [miRNAunknown_Multihit_shortStem_nonpairedHIGH]

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

Ensembl miRNA

0.250

no

no

0.71/0.71

21/21/1.00

0.0

0.0

1

0

1

0

0

4

5arm

15

30

0.33

3

1

1

na

na

		reads	miRBase family seed
seed	-CCGUAGG--------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	TCCGTAGGGTGGCAGGGCCAC-------------------------------------	21	1
rat	TCCGTAGGGTGGCAGGGCCACaaccagcatagtcaggtgtgcaccatgcacctctggg
	**********************************************************
	--------------------------------------------------------------------	ENSRNOT00000018552 ENSRNOG00000013781 Kcnq5
	--------------------------------------------------------------------	ENSRNOT00000040034 ENSRNOG00000013781 Kcnq5
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++>>>>>>>>>>>	ENSRNOT00000048965 ENSRNOG00000030559
	............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000054654 ENSRNOG00000036549
rat	.(((.(((...(((((..(((.(((..........))))))..)).))).))).))).	0.470 -19.30

rat

chromosome:9:20293764:20293821:1

Opposite_strand|Intronic_coding|ENSRNOT00000018552|ENSRNOG00000013781 ## Same_strand|Exonic_coding|ENSRNOT00000048965|ENSRNOG00000030559 ## Same_strand|Boundary_non-coding|ENSRNOT00000054654|ENSRNOG00000036549 ## ENSRNOG00000036549|miRNA|| ## ENSRNOG00000013781|protein_coding|Kcnq5|Potassium voltage-gated channel KQT-like subfamily member 5 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q8K3W7] ## ENSRNOG00000030559|protein_coding||

Back to summary page

other hairpins:

Page 1

Jump 10 pages back

Previous page

Page 31166

Next page

Jump 10 pages forward

Page 31204