miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH (7 loci)

block1727067 [novel_lenNOK_cloningOK_shortStem_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
no	0.083	no	no	0.50/0.50	18/18/0.00	0.0	0.0	9	0	6	0	1	-2	5arm_loop	1	nd	0.39	4	12	6	na	na

		reads	miRBase family seed
seed	--GAUCUGC---------------------------	12	novel
		len	cloning frequencies
			T1S1	T2S1	T2S2	T3S1	T4S2	T5S1
	-TGATCTGCTTCAGCAGGA-----------------	18	1	4	3	1	1	2
rat	gTGATCTGCTTCAGCAGGAttttgcttcagatgcac
	************************************
rat	((((((((....(((((....))))).))))).)))	0.920 -9.20

rat

chromosome:5:33818705:33818740:-1

intergenic

block1858170 [novel_lenNOK_cloningOK_shortStem_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
no	0.345	no	no	0.44/0.50	18/18/0.00	0.0	0.0	7	0	4	0	1	-3	5arm_loop	1	nd	0.39	4	11	4	na	na

		reads	miRBase family seed
seed	--GAAGUGC----------------------------------------------	9	novel
seed	---AAGUGCU---------------------------------------------	2	miR-291a
		len	cloning frequencies
			T1S1	T3S1	T3S2	T5S2
	-GGAAGTGCTTACAGTGCA------------------------------------	18	1	4	3	1
	--GAAGTGCTTACAGTGCAA-----------------------------------	18	-	1	1	-
rat	aGGAAGTGCTTACAGTGCAaaaaacgtactccagaagactgcgagccatttgctg
	*******************************************************
rat	((.(((((((..((((.....................))))..))).)))).)).	0.570 -10.70

rat

chromosome:5:101059561:101059615:1

intergenic

block1962582 [novel_lenNOK_cloningOK_shortStem_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
no	0.091	no	no	0.47/0.50	18/19/0.00	0.0	0.0	18	0	8	0	2	-3	5arm_loop	1	nd	0.33	4	22	8	na	na

		reads	miRBase family seed
seed	---GAGAUGG------------------------------------	22	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--TGAGATGGGATGCTGAAG--------------------------	18	1	1	2	3	4	6	1	3
	--TGAGATGGGATGCTGAAGA-------------------------	19	-	-	1	-	-	-	-	-
rat	tgTGAGATGGGATGCTGAAGatccacaagcccagctaactctcacg
	**********************************************
	--------------------------------------------------------	ENSRNOT00000007947 ENSRNOG00000005998 Smoc1
rat	.((((((((((.((.((......))))..))))......)))))).	0.760 -12.50

rat

chromosome:6:104904449:104904494:-1

block2172255 [novel_lenNOK_cloningOK_shortStem_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
no	0.019	no	no	0.44/0.44	18/18/0.00	0.0	0.0	26	0	8	0	4	-2	5arm_loop	2	nd	0.56	4	30	8	na	na

		reads	miRBase family seed
seed	-----AUUGUGU--------------------------------	30	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2
	----TATTGTGTCTCAGGGCTA----------------------	18	13	1	4	1	4	1	1	5
rat	tatcTATTGTGTCTCAGGGCTAcggctctattcactcctgatac
	********************************************
	------------------------------------------------------	ENSRNOT00000051270 ENSRNOG00000005309 O88421_RAT
	------------------------------------------------------	ENSRNOT00000008160 ENSRNOG00000005309 O88421_RAT
	------------------------------------------------------	ENSRNOT00000055358 ENSRNOG00000036874
rat	((((....(((....(((((....)))))...)))....)))).	1.000 -13.30

rat

chromosome:7:139730372:139730415:-1

Opposite_strand|Intronic_coding|ENSRNOT00000008160|ENSRNOG00000005309 ## ENSRNOG00000005309|protein_coding|O88421_RAT|Voltage-gated sodium channel variant rPN4a. [Source:UniProtKB/TrEMBL;Acc:O88421] ## ENSRNOG00000036874|protein_coding||

block1067427 [novel_lenNOK_cloningOK_shortStem_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
no	0.150	no	no	0.36/0.40	20/25/0.40	0.0	1.4	7	0	2	0	4	-2	3arm_loop	1	nd	0.44	4	10	2	na	na

		reads	miRBase family seed
seed	--------------------------------------ACAGUAA---------------------	8	novel
seed	-------------------------------------UACAGUA----------------------	1	novel
seed	---------------------------------------CAGUAAA--------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-------------------------------------TACAGTAAACTTCATGGGAGTTAAC----	25	1	5
	-------------------------------------TACAGTAAACTTCATGGGAG---------	20	-	2
	--------------------------------------ACAGTAAACTTCATGGGAGTTAAC----	24	-	1
	------------------------------------ATACAGTAAACTTCATGGGAG---------	21	-	1
rat	ggcgggacggggtggggtggggtgggagggactgtgaTACAGTAAACTTCATGGGAGTTAACgcca
	******************************************************************
rat	((((.(((...(((..((............((((.....))))..))..)))....)))..)))).	0.920 -16.94

rat

chromosome:20:13212230:13212295:-1

intergenic

novel_lenNOK_gcHIGH_bulgeHIGH (7 loci)

block1055581 [novel_lenNOK_gcHIGH_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	0.749	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	20	0	5arm	1	nd	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------CGCGGCC--------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	--------------------CCGCGGCCCCGCGCCTCC----------------------------------------------------	18	1
rat	ccttgcggcgccttagtccgCCGCGGCCCCGCGCCTCCtcagactcttcccccgggggcggcccgagcggccgacgggcggcgggcgagg
	******************************************************************************************
rat	(((((((.(((((..(((.(((((((((....((((((...............))))))))))...))))).)))))))).))..)))))	0.980 -45.66

rat

chromosome:1:265883088:265883177:1

intergenic ## {SimpF: oe = 0.95 1 CpG}

block1337208 [novel_lenNOK_gcHIGH_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	0.076	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	14	22	5arm	1	nd	0.22	4	1	1	na	na

		reads	miRBase family seed
seed	---------------CCCGGCC---------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------CCCCGGCCCCCGCGCCCT-----------------------------------------------------------------------------	18	1
rat	ggcccccgccgtgaCCCCGGCCCCCGCGCCCTgcgccccgccggctgcggccgctccagcgttcggggacacaggcggggcgctgtggggtgctgggtgacgggtcccc
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000013993 ENSRNOG00000010487 Dnajb14
rat	((..((((.((....(((((((((((((....((((((((((..((.((..(((....)))..)).)).....))))))))))))))))).)))))))).))))..)).	0.900 -69.70

rat

chromosome:2:235356419:235356527:1

Same_strand|Intronic_coding|ENSRNOT00000013993|ENSRNOG00000010487 ## ENSRNOG00000010487|protein_coding|Dnajb14|DnaJ (Hsp40) homolog, subfamily B, member 14 Gene [Source:MGI (curated);Acc:Dnajb14-001] ## {Repeats: GC_rich 1 77 1 class=Low_complexity,trf 1 14 0 class=trf,dust 235356435 235356453 0 class=dust,GC_rich 37 55 1 class=Low_complexity}

block1441348 [novel_lenNOK_gcHIGH_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	0.445	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	20	1	3arm	1	nd	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------CCCCGCC------------------------------	1	novel
		len	cloning frequencies
			T4S2
	----------------------------------------------------CCCCCGCCCCCACGCCCC--------------------	18	1
rat	tcatggctggactccagtggctggcagtgaacttggatgggttctcctcctaCCCCCGCCCCCACGCCCCcaacttcataaaagcctgga
	******************************************************************************************
rat	(((.((((.......(((((..(((.(((....(((..((((.........)))))))....)))))).))).)).......))))))).	0.630 -23.24

rat

chromosome:3:14859175:14859264:1

intergenic ## {Repeats: dust 14859228 14859245 0 class=dust}

block1735238 [novel_lenNOK_gcHIGH_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	0.186	no	no	1.00/1.00	19/19/0.00	0.0	0.0	1	0	1	0	28	7	5arm	1	nd	0.26	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------GCCGGGC------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------GGCCGGGCCGCCCCCGCCG-------------------------------------------------------------------------	19	1
rat	cgccgcccgctcggggccgctcccgagaGGCCGGGCCGCCCCCGCCGtgcgctcgggctgagcgcgctgaggctcttgcgcggagaccggctcccttcggaagtggacccggtcagtggc
	************************************************************************************************************************
rat	.(((((..((.((((.(((((.(((((.((((((.((((....(((((((((((.....))))))))...)))......))))...))))))...))))).))))).))))))..)))))	0.830 -68.60

rat

chromosome:5:51152877:51152996:-1

intergenic ## {Repeats: GC_rich 1 49 -1 class=Low_complexity,GC_rich 1 20 -1 class=Low_complexity}

block1903125 [novel_lenNOK_gcHIGH_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	0.122	no	no	0.95/0.95	19/19/0.00	0.0	0.0	1	0	1	0	19	15	3arm	1	nd	0.26	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GGCCCCC------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------------------------------------------------------TGGCCCCCGGGGGGGGGGG-------------------	19	1
rat	ccacagtgcagtgcttttgtgccctgccccctgtccagaagcctgccctttgatcctacaggggtcacacggaagcTGGCCCCCGGGGGGGGGGGgttgtgcttgcatcctggc
	******************************************************************************************************************
rat	(((..((((((.((......(((((.(((((...((....(((.((((..((((((.....))))))...))..)).)))....))))))).)))))...))))))))..))).	0.980 -49.20

rat

chromosome:5:171833012:171833125:1

intergenic ## {Repeats: dust 171833097 171833107 0 class=dust}

Page 31042

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Page 31204

miR-Intess™

block1727067 [novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1858170 [novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1962582 [novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH]

block2172255 [novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1067427 [novel_lenNOK_cloningOK_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1055581 [novel_lenNOK_gcHIGH_bulgeHIGH]

block1337208 [novel_lenNOK_gcHIGH_bulgeHIGH]

block1441348 [novel_lenNOK_gcHIGH_bulgeHIGH]

block1735238 [novel_lenNOK_gcHIGH_bulgeHIGH]

block1903125 [novel_lenNOK_gcHIGH_bulgeHIGH]