miR-Intess: classification

other hairpins

novel_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH (37 loci)

block2367821 [novel_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	0.727	no	no	0.61/0.61	23/23/1.00	0.0	0.0	1	0	1	0	25	-3	5arm_loop	1	3	0.48	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------GCUCCUC-------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-------------------------CGCTCCTCGCCTTTTGCTTCCCA----------------------------------------------------	23	1
rat	gccgccgagatcagcctttggttcaCGCTCCTCGCCTTTTGCTTCCCAtagatatgaagtgcggcgtgtgtctgtgcgtggtgatggcagtcctggcagc
	****************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000026159 ENSRNOG00000019321 Cck
rat	((.((((.(((..(((......((((((....((((...((((((..........)))))).)))).........))))))....))).))).)))).))	0.920 -30.12

rat

chromosome:8:126498016:126498115:-1

Same_strand|Intronic_non-coding|ENSRNOT00000026159|ENSRNOG00000019321 ## ENSRNOG00000019321|protein_coding|Cck|Cholecystokinins precursor (CCK) [Contains: Cholecystokinin-39 (CCK39); Cholecystokinin-33 (CCK33); Cholecystokinin-22 (CCK22); Cholecystokinin-12 (CCK12); Cholecystokinin-8 (CCK8)]. [Source:UniProtKB/Swiss-Prot;Acc:P01355]

block2387102 [novel_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	0.290	no	no	0.62/0.62	21/21/1.00	0.0	0.0	1	0	1	0	11	-3	3arm_loop	1	0	0.48	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------CUGACCU------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------------CCTGACCTTGCCACTGCTCAG-----------	21	1
rat	ttccttgtgctgccggtgctccgtggccaccttccCCTGACCTTGCCACTGCTCAGgtaatgaggag
	*******************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>	ENSRNOT00000009825 ENSRNOG00000007142 B3gat1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>	ENSRNOT00000009912 ENSRNOG00000007142 B3gat1
rat	.(((((((..((((...((...(((((.....((....))....))))).))...))))))))))).	0.940 -19.90

rat

chromosome:8:26351170:26351236:1

Same_strand|Intronic_non-coding|ENSRNOT00000009912|ENSRNOG00000007142 ## ENSRNOG00000007142|protein_coding|B3gat1|Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 1 (EC 2.4.1.135) (Beta-1,3-glucuronyltransferase 1) (Glucuronosyltransferase-P) (GlcAT-P) (UDP-GlcUA:glycoprotein beta- 1,3-glucuronyltransferase) (GlcUAT-P). [Source:UniProtKB/Swiss-Prot;Acc:O35789]

block2725067 [novel_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	0.507	no	no	0.30/0.30	23/23/1.00	0.0	0.0	1	0	1	0	36	-3	3arm_loop	1	1	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------UGAGUGU---------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------------------------------------GTGAGTGTATTTTAGTAAAGAGT------------------------------------	23	1
rat	gctgtaatccgctggttaagagacaaccttggaattattaagtcctctgaagaaattgGTGAGTGTATTTTAGTAAAGAGTtaaactgtctaaagaaagcccttaatcagaaggcag
	*********************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042729 ENSRNOG00000034116 Gyk
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000046732 ENSRNOG00000034116 Gyk
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000051249 ENSRNOG00000034116 Gyk
rat	.((((......(((((((((........(((((....((((.((..((((((..(((....)))...))))))....)).))))....)))))........)))))))))...))))	0.480 -20.89

rat

chromosome:X:72430671:72430787:-1

Same_strand|Boundary_coding|ENSRNOT00000046732|ENSRNOG00000034116 ## ENSRNOG00000034116|protein_coding|Gyk|Glycerol kinase (EC 2.7.1.30) (ATP:glycerol 3-phosphotransferase) (Glycerokinase) (GK) (ATP-stimulated glucocorticoid-receptor translocation promoter) (ASTP). [Source:UniProtKB/Swiss-Prot;Acc:Q63060]

block2182719 [novel_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	0.908	no	no	0.55/0.55	22/22/1.00	0.0	0.0	1	0	1	0	18	-3	5arm_loop	1	0	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------UGACUGA----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	------------------CTGACTGATGCTTCTCCTGCAG--------------------------------------	22	1
rat	tggctccagactagatcaCTGACTGATGCTTCTCCTGCAGacgggcggcgtgggcagcttagacatcgctggcctgct
	******************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000026960 ENSRNOG00000019891 Sgta
rat	.(((.((((....(((..(((((((.(((.((.((((....)))).)).)))..))).))))..))).))))...)))	0.820 -21.10

rat

chromosome:7:10150202:10150279:1

novel_mirtron_bulgeHIGH (37 loci)

block28311 [novel_mirtron_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	0.026	no	no	0.73/0.73	22/22/1.00	0.0	0.0	1	0	1	0	16	10	3arm	1	2	0.27	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------GCCCUCU------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------------------------------TGCCCTCTGCCTGGCCGCAGGT----------------	22	1
rat	cttgttccttgagtgggttctaggcaggacagggaggaggctggtcttacgttcatggctccTGCCCTCTGCCTGGCCGCAGGTttctggaggaccaagt
	****************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000004322 ENSRNOG00000003233 Serpinf2
rat	((((.(((((.((((((..((((((((...(((((((((..(((........)))...))))).)))))))))))))).)).....)).))))).)))).	0.960 -39.50

rat

chromosome:10:62752834:62752933:-1

block38182 [novel_mirtron_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	0.020	no	no	0.57/0.57	23/23/1.00	0.0	0.0	2	0	1	0	8	8	3arm	1	1	0.26	4	2	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------AGAGCAU-----------------------	2	novel
		len	cloning frequencies
			T1S1
	---------------------------------------------------------CAGAGCATCCCTTCTCCCTTAGC--------	23	2
rat	gtgttcagccctcacatggggggaagggggactgtaaccatggtgcccagccatctaCAGAGCATCCCTTCTCCCTTAGCgttccaac
	****************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>	ENSRNOT00000055582 ENSRNOG00000003728 Xylt2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>	ENSRNOT00000005164 ENSRNOG00000003728 Xylt2
rat	......(((.((.....((((((((((((..(((((...(((((.....))))).)))))....)))))))))))).)).))).....	0.450 -30.90

rat

chromosome:10:83303668:83303755:-1

block45368 [novel_mirtron_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	0.110	no	no	0.57/0.57	23/23/1.00	0.0	0.0	1	0	1	0	9	5	3arm	1	4	0.30	5	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------ACUGACU------------------------	1	novel
		len	cloning frequencies
			T3S1
	-----------------------------------------------------GACTGACTTCCCCTTGCAGAACC---------	23	1
rat	gcctaaaaacaccccagcctgcagggtggagggagggctcatggggccccactGACTGACTTCCCCTTGCAGAACCttcttggct
	*************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>	ENSRNOT00000035973 ENSRNOG00000025448 Limd2
rat	(((...............((((((((.(((((..((..((((((....))).)))))..))))))))))))).........))).	0.620 -29.95

rat

chromosome:10:95553889:95553973:-1

block56849 [novel_mirtron_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	0.905	no	no	0.44/0.52	18/22/0.75	0.1	2.6	8	0	6	0	31	7	3arm	1	0	0.24	4	8	6	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AACCGUC---------------------------------------------	7	novel
seed	---------------------------------------------------------------------ACCGUCC--------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T3S2	T4S1
	-------------------------------------------------------------------TAACCGTCCTTTGTCTTCCCAG-------------------------------	22	-	1	-	-	-	1
	-------------------------------------------------------------------TAACCGTCCTTTGTCTTCCCA--------------------------------	21	-	-	-	1	1	-
	-------------------------------------------------------------------TAACCGTCCTTTGTCTTCC----------------------------------	19	1	-	-	-	-	-
	--------------------------------------------------------------------AACCGTCCTTTGTCTTCCCAG-------------------------------	21	1	-	-	-	-	-
	-------------------------------------------------------------------TAACCGTCCTTTGTCTTC-----------------------------------	18	-	1	-	-	-	-
	-------------------------------------------------------------------TAACCGTCCTTTGTCTTCCC---------------------------------	20	-	-	1	-	-	-
rat	tcctgtcagatccctgccccctcgagtgtcttggggagacagctgtggctttggcattgagcatcccTAACCGTCCTTTGTCTTCCCAGggtgagcatttcagagaagtgatgaagcgga
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000050277 ENSRNOG00000025496 Usp7
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000046232 ENSRNOG00000025496 Usp7
rat	((((((((..((.(((....((((....(((((((((((((((.((.......((.....)).......)).))....))))))))))))))))).....))).))..)))))....)))	0.650 -31.44

rat

chromosome:10:6962719:6962838:1

Same_strand|Intronic_non-coding|ENSRNOT00000050277|ENSRNOG00000025496 ## Same_strand|Intronic_coding|ENSRNOT00000046232|ENSRNOG00000025496 ## ENSRNOG00000025496|protein_coding|Usp7|Ubiquitin carboxyl-terminal hydrolase 7 (EC 3.1.2.15) (Ubiquitin thioesterase 7) (Ubiquitin-specific-processing protease 7) (Deubiquitinating enzyme 7) (Herpesvirus-associated ubiquitin-specific protease) (rHAUSP). [Source:UniProtKB/Swiss-Prot;Acc:Q4VSI4]

block66521 [novel_mirtron_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	0.054	no	no	0.57/0.58	23/24/1.00	0.0	0.5	2	0	1	0	8	8	3arm	1	2	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------AGGCAGC------------------------	2	novel
		len	cloning frequencies
			T1S2
	--------------------------------------------------AAGGCAGCCTTGTCTCTCCTCCT---------	23	1
	--------------------------------------------------AAGGCAGCCTTGTCTCTCCTCCTC--------	24	1
rat	gcagccgtgtgggaggagtgagctgtgcattttataagtacttgagatctAAGGCAGCCTTGTCTCTCCTCCTCaggtagtg
	**********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>	ENSRNOT00000006436 ENSRNOG00000004602 NP_001099248.1
rat	((.(((.((.((((((((.(((((((..((((((........)))))).....)))))....)).))))))))))))).)).	0.930 -27.60

rat

chromosome:10:29708219:29708300:1

block80971 [novel_mirtron_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	0.038	no	no	0.67/0.67	24/24/1.00	0.0	0.0	1	0	1	0	16	9	3arm	1	0	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------CCUCCCA--------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-------------------------------------------------------CCCTCCCAACCTTGGCCTTCCCAG----------------	24	1
rat	ggtctttactacctagggaatctgggccaggataggatgtaccttggtgctctcaCCCTCCCAACCTTGGCCTTCCCAGgtgcacagtgatttca
	***********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000042197 ENSRNOG00000002669 RGD1307222_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000003687 ENSRNOG00000002669 RGD1307222_predicted
rat	((...(((((((((.((((....((((((((...(((.((((....))))........)))....))))))))))))))))....)))))..)).	0.510 -30.70