miR-Intess™

other hairpins

novel_lenNOK_gcHIGH_cloningOK_5varHIGH_loopOverlap (1 loci)

novel_lenNOK_gcHIGH_cloningOK_multiarm_DicerNOK_5varHIGH_loopOverlap_bulgeHIGH (1 loci)

sblock84 [novel_lenNOK_gcHIGH_cloningOK_multiarm_DicerNOK_5varHIGH_loopOverlap_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

0.916

no

no

0.63/0.95

18/22/0.40

1.5 0.0 0.0 1.0

1.5 0.0 2.0 1.5

2 1 5 2

0 0 0 0

2 1 3 1

0 0 0 0

8 17 40 25

16 9 -16 9

5arm 5arm 5arm_loop_3arm 3arm

1 1 1 1

nd nd nd nd

0.26 0.25 0.55 0.30

3 4 12 3

10

6

-7

-4

		reads	miRBase family seed
seed	-----------------------------------------CGAGCCU------------------------------------------------------------------	5	novel
seed	--------------------------------------------------------------------CCAGACU---------------------------------------	1	novel
seed	------------------GGCCCGG-----------------------------------------------------------------------------------------	1	novel
seed	----------------------------------------------------------------------AGACUCU-------------------------------------	1	novel
seed	---------GCGCGCG--------------------------------------------------------------------------------------------------	1	novel
seed	------------CGCGCGG-----------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T5S1
	----------------------------------------TCGAGCCTCCCACGCGCCG-------------------------------------------------------	19	1	1	-	-	-	-
	----------------------------------------TCGAGCCTCCCACGCGCCGCTC----------------------------------------------------	22	-	1	-	-	1	-
	---------------------------------------------------------------------CAGACTCTAGCACCTCCCGC-------------------------	20	-	-	-	-	1	-
	----------------------------------------TCGAGCCTCCCACGCGCC--------------------------------------------------------	18	1	-	-	-	-	-
	-----------GCGCGCGGGCCCGGGAGCG------------------------------------------------------------------------------------	19	-	-	1	-	-	-
	-------------------------------------------------------------------CCCAGACTCTAGCACCTCC----------------------------	19	-	-	-	-	1	-
	-----------------GGGCCCGGGAGCGGGGTGCG-----------------------------------------------------------------------------	20	-	-	-	1	-	-
	--------CGCGCGCGCGGGCCCGGGA---------------------------------------------------------------------------------------	19	-	-	-	-	-	1
rat	ggtgcgcgCGCGCGCGCGGGCCCGGGAGCGGGGTGCGgtcTCGAGCCTCCCACGCGCCGCTCgactcCCCAGACTCTAGCACCTCCCGCgtcgcccgcctccgcctgggcgccc
	******************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000060560 ENSRNOG00000029049 Zdhhc14
rat	(((((.((.(((...((((((.(((((....(((((((((((((((............)))))).......))))...))))))))))....))))))...))).)).))))).	0.680 -52.81

rat

chromosome:1:40884624:40884737:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000043521|ENSRNOG00000029049 ## Opposite_strand|Intronic_coding|ENSRNOT00000060560|ENSRNOG00000029049 ## ENSRNOG00000029049|protein_coding|Zdhhc14|zinc finger, DHHC domain containing 14 Gene [Source:MGI Symbol;Acc:MGI:2653229] ## {Repeats: GC_rich 1 19 -1 class=Low_complexity,dust 40884720 40884730 0 class=dust,GC_rich 1 48 -1 class=Low_complexity} ## {SimpF: -1 Eponine}

novel_lenNOK_gcHIGH_cloningOK_nonpairedHIGH_bulgeHIGH (1 loci)

block1634669 [novel_lenNOK_gcHIGH_cloningOK_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

0.414

no

no

0.89/0.94

18/19/0.00

0.0

0.0

11

0

8

0

23

14

3arm

1

nd

0.33

4

17

8

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------GCGGGCC---------------------------------	17	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T5S1	T5S2
	-------------------------------------------------------------------------------CGCGGGCCGGAGCGGGGG-----------------------	18	1	3	6	2	1	-	1	1
	-------------------------------------------------------------------------------CGCGGGCCGGAGCGGGGGT----------------------	19	-	-	1	-	-	1	-	-
rat	tgcctcggctcccggaggccgggcccctccgctccttgtagggtgtgtgctccgaaaataggaagcggagccgggcggcCGCGGGCCGGAGCGGGGGtggcgggaccgggccctaggggt
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000039017 ENSRNOG00000028549 Capza2
rat	.(((((((..(((((...((..(((((((((((((..((.((.(((.(((((((...........))))).)).))).))....)).)))))))))).))).)).)))))..)).)))))	0.400 -62.60

rat

chromosome:4:43293558:43293677:1

Same_strand|Intronic_coding|ENSRNOT00000039017|ENSRNOG00000028549 ## ENSRNOG00000028549|protein_coding|Capza2|F-actin-capping protein subunit alpha-2 (CapZ alpha-2). [Source:UniProtKB/Swiss-Prot;Acc:Q3T1K5] ## {Repeats: GC_rich 1 44 1 class=Low_complexity,GC_rich 10 29 1 class=Low_complexity} ## {SimpF: 1 Eponine}

novel_lenNOK_gcHIGH_cloningOK_randfoldOK (1 loci)

block2404579 [novel_lenNOK_gcHIGH_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

no

0.005

no

no

0.94/0.95

18/19/0.00

0.0

0.0

10

0

6

0

25

11

5arm

1

nd

0.26

3

16

6

na

na

		reads	miRBase family seed
seed	--------------------------GGCGGGG---------------------------------------------------------------------------------------	14	novel
seed	---------------------------GCGGGGC--------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S2	T2S2	T3S1	T4S1	T4S2	T5S1
	-------------------------GGGCGGGGCCGGGGGTGGG----------------------------------------------------------------------------	19	5	3	-	1	-	2
	-------------------------GGGCGGGGCCGGGGGTGG-----------------------------------------------------------------------------	18	1	1	1	-	-	-
	--------------------------GGCGGGGCCGGGGGTGGG----------------------------------------------------------------------------	18	-	1	-	-	1	-
rat	gcacctcaagctcttcagatacacaGGGCGGGGCCGGGGGTGGGctggtagtttgcatagaacaaactcaccccaacaaactcccgatgctgccctggtagggacttaagtttaagtgtc
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000059218 ENSRNOG00000031890 Ncam1
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000042281 ENSRNOG00000031890 Ncam1
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000047666 ENSRNOG00000031890 Ncam1
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000059217 ENSRNOG00000031890 Ncam1
rat	((((...(((((..((...(((.((((((((...(((((((.((..(((((((((.......)))))).))))).....)))))))...)))))))))))..))....)))))..)))).	0.990 -44.60

rat

chromosome:8:52846562:52846681:1

Opposite_strand|Intronic_coding|ENSRNOT00000059217|ENSRNOG00000031890 ## ENSRNOG00000031890|protein_coding|Ncam1|Neural cell adhesion molecule 1, 140 kDa isoform precursor (N-CAM 140) (NCAM-140) (CD56 antigen). [Source:UniProtKB/Swiss-Prot;Acc:P13596]

novel_lenNOK_gcHIGH_loopOverlap_bulgeHIGH (1 loci)

block1350510 [novel_lenNOK_gcHIGH_loopOverlap_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

0.049

no

no

0.94/0.94

18/18/0.00

0.0

0.0

1

0

1

0

32

-3

5arm_loop

2

nd

0.28

4

1

1

na

na

		reads	miRBase family seed
seed	---------------------------------GGGCCGG----------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	--------------------------------AGGGCCGGGGCGCGGGCC------------------------------------------	18	1
rat	gctatgagaaactgggagtgaagggtttggagAGGGCCGGGGCGCGGGCCacctacactgctccttggcccagcctgcccagtgcaagtgca
	********************************************************************************************
rat	((..((....((((((......(((((......(((((((((.((((..........)))).)))))))))))))).)))))).))...)).	0.960 -39.90

rat

chromosome:3:6154307:6154398:-1

intergenic

novel_lenNOK_gcHIGH_mirtron (1 loci)

block985524 [novel_lenNOK_gcHIGH_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

0.475

no

no

1.00/1.00

19/19/0.00

0.0

0.0

1

0

1

0

9

10

3arm

1

4

0.11

1

1

1

na

na

		reads	miRBase family seed
seed	-------------------------------------------------------GCCCCGC--------------------	1	novel
		len	cloning frequencies
			T1S1
	------------------------------------------------------CGCCCCGCGCCCCGCGGGG---------	19	1
rat	cggaagagcgcccgggtggcagtggagaagggcaaatgtgggaacagcagagggCGCCCCGCGCCCCGCGGGGtaacaccgc
	**********************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++>>>>>>>>>>>>>>>>>>	ENSRNOT00000028189 ENSRNOG00000020779 NP_001102384.1
rat	(((....((.((((((.(((.((((....((((...((((....)).))....)).))))))))))).))))))....))).	0.870 -31.20

rat

chromosome:1:95878397:95878478:1

Same_strand|Boundary_coding|ENSRNOT00000028189|ENSRNOG00000020779 ## ENSRNOG00000020779|protein_coding|NP_001102384.1|potassium voltage-gated channel, shaker-related subfamily, member 7 [Source:RefSeq_peptide;Acc:NP_001102384] ## {Repeats: GC_rich 3 22 1 class=Low_complexity,dust 95878473 95878492 0 class=dust,GC_rich 1 22 1 class=Low_complexity}

novel_lenNOK_gcHIGH_multiarm_DicerNOK_5varHIGH (1 loci)

sblock11584 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_5varHIGH]

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

0.337

no

no

0.57/0.94

18/23/0.50

0.0 0.0 2.0 0.0

0.0 0.0 2.0 0.0

1 1 3 1

0 0 0 0

1 1 3 1

0 0 0 0

13 25 10 0

2 6 16 27

5arm 3arm 3arm 3arm

2 2 2 2

nd nd nd nd

0.17 0.47 0.26 0.55

2 6 4 7

6

5

4

-3

		reads	miRBase family seed
seed	---------------------------------------------------------CCGAGCU-----------------------	2	novel
seed	-----------------------------------------------------------------AGGGAAA---------------	1	novel
seed	--------------------------------------------GUUACUG------------------------------------	1	novel
seed	------------------------------------------------------GGACCGA--------------------------	1	novel
seed	--------------GGCGCGG------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S1	T3S1	T3S2	T4S2
	-------------------------------------------CGTTACTGATGGGACCGAG-------------------------	19	-	1	-	-	-
	-----------------------------------------------------GGGACCGAGCTCAGGGAAAC--------------	20	-	-	1	-	-
	--------------------------------------------------------ACCGAGCTCAGGGAAACAC------------	19	-	-	-	-	1
	--------------------------------------------------------ACCGAGCTCAGGGAAACACGG----------	21	1	-	-	-	-
	-------------GGGCGCGGCGGGCGAGGG--------------------------------------------------------	18	-	-	1	-	-
	----------------------------------------------------------------CAGGGAAACACGGGGCTGTTTTC	23	-	-	-	1	-
rat	gtcacggcttcctGGGCGCGGCGGGCGAGGGtcgggagagactCGTTACTGATGGGACCGAGCTCAGGGAAACACGGGGCTGTTTTC
	***************************************************************************************
rat	(((.((..(((((((((.(((((((((((..((....))..)))))..)))......))).)))))))))....)).))).......	0.830 -34.00

rat

chromosome:8:47573124:47573210:-1

intergenic ## {SimpF: -1 Eponine,oe = 0.92 -1 CpG}

novel_lenNOK_gcHIGH_multiarm_DicerNOK_5varHIGH_loopOverlap (1 loci)

sblock4545 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_5varHIGH_loopOverlap]

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

0.159

no

no

0.39/0.94

18/21/0.17

0.0 2.0 0.5 0.0

0.0 1.0 0.5 0.0

1 2 2 1

0 0 0 0

1 2 2 1

0 0 0 0

2 10 39 2

24 11 -15 15

5arm 5arm 5arm_loop_3arm 3arm

1 1 1 1

nd nd nd nd

0.33 0.29 0.58 0.22

3 3 11 2

6

4

10

11

		reads	miRBase family seed
seed	-----------------------------------------CGCAGGA------------------------------------------	1	novel
seed	-----------UUUGUGU------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------------GCGCGCG------------	1	novel
seed	---AGCUAAA--------------------------------------------------------------------------------	1	novel
seed	----------------------------------------CCGCAGG-------------------------------------------	1	novel
seed	---------------UGUGAGA--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T3S2
	----------GTTTGTGTGAGAGCTGATCGC-----------------------------------------------------------	21	-	-	-	1
	---------------------------------------GCCGCAGGATTTAGGGGTG--------------------------------	19	-	-	-	1
	--------------GTGTGAGAGCTGATCGCTG---------------------------------------------------------	19	-	1	-	-
	----------------------------------------CCGCAGGATTTAGGGGTGG-------------------------------	19	-	-	1	-
	--CAGCTAAAGTTTGTGTGA----------------------------------------------------------------------	18	1	-	-	-
	----------------------------------------------------------------------CGCGCGCGGGCGGGCACG--	18	1	-	-	-
rat	cgCAGCTAAAGTTTGTGTGAGAGCTGATCGCTGgcggcgGCCGCAGGATTTAGGGGTGGgcgcaggcgggCGCGCGCGGGCGGGCACGcg
	******************************************************************************************
rat	(((.(((...(((((((((...(((...((((....(((.((((...........)))).))).))))))).))))))))).)))..)))	0.960 -37.90

rat

chromosome:15:3012972:3013061:1

intergenic ## {Repeats: GC_rich 1 21 1 class=Low_complexity,GC_rich 6 21 1 class=Low_complexity} ## {SimpF: 1 Eponine,oe = 0.88 1 CpG}

novel_lenNOK_gcHIGH_multiarm_DicerNOK_Multihit_loopOverlap (1 loci)

sblock6654 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_Multihit_loopOverlap]

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

0.358

no

no

0.72/0.95

18/19/0.00

0.0 0.0

0.0 0.0

1 1

0 0

1 1

0 0

28 0

-2 37

5arm_loop 3arm

1 13

47 11

0.37 0.29

3 2

2

2

0

0

		reads	miRBase family seed
seed	-----------------------------CCCCGCC---------------------------------------------------------------------	1	novel
seed	----------------------------------------------------------------------------------------CCCCAGG----------	1	novel
		len	cloning frequencies
			T2S1	T5S2
	----------------------------GCCCCGCCCGCGCACCCGC----------------------------------------------------------	19	1	-
	---------------------------------------------------------------------------------------CCCCCAGGCTCACACTCG	18	-	1
rat	gggtcccgagcctggcgctccgctccccGCCCCGCCCGCGCACCCGCccggggtcccgggaggaggtcggggtctcaccgcgcgccgCCCCCAGGCTCACACTCG
	*********************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042972 ENSRNOG00000029682 Clic1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000041917 ENSRNOG00000021604 RT1-CE1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>	ENSRNOT00000048076 ENSRNOG00000029579 RT1-CE2
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>	ENSRNOT00000044520 ENSRNOG00000029579 RT1-CE2
rat	((((...((((((((.((..(((.(((((((((.((((...((((.....))))..)))).)).)).))))).........)))..))..))))))))..)))).	0.940 -52.80

rat

chromosome:20:3579487:3579591:-1

Same_strand|Boundary_non-coding|ENSRNOT00000048535|ENSRNOG00000021604 ## Same_strand|Intronic_coding|ENSRNOT00000044520|ENSRNOG00000029579 ## Same_strand|Boundary_coding|ENSRNOT00000044520|ENSRNOG00000029579 ## Same_strand|Intronic_non-coding|ENSRNOT00000041917|ENSRNOG00000021604 ## ENSRNOG00000021604|protein_coding|RT1-CE1|RT1 class I, CE1 [Source:RefSeq_peptide;Acc:NP_001008832] ## ENSRNOG00000029682|protein_coding|Clic1|chloride intracellular channel 1 [Source:RefSeq_peptide;Acc:NP_001002807] ## ENSRNOG00000029579|protein_coding|RT1-CE2|RT1 class I, CE2 [Source:RefSeq_peptide;Acc:NP_001008840] ## {Repeats: GC_rich 7 26 -1 class=Low_complexity,GC_rich 1 29 -1 class=Low_complexity} ## {SimpF: -1 Eponine,oe = 1.10 -1 CpG}

novel_lenNOK_gcHIGH_multiarm_DicerNOK_Multihit_nonpairedHIGH (1 loci)

sblock6091 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_Multihit_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

no

0.931

no

no

0.78/1.00

18/19/0.00

0.0 0.0

0.0 0.0

1 1

0 0

1 1

0 0

12 18

9 3

5arm 3arm

1 789

nd nd

0.33 0.42

2 5

2

1

-6

-9

		reads	miRBase family seed
seed	-------------CGCAUGA-----------------------------------------------------------------	1	novel
seed	-------------------------------------------------CCGCCGC-----------------------------	1	novel
		len	cloning frequencies
			T3S1
	------------------------------------------------GCCGCCGCCGCCGCCGCCG------------------	19	1
	------------GCGCATGAGCGGGAGCCC-------------------------------------------------------	18	1
rat	ggccgctgcactGCGCATGAGCGGGAGCCCggcgagcccgtgagaggcGCCGCCGCCGCCGCCGCCGtccattcgctgcggagcc
	*************************************************************************************
rat	(((..(((((..(((.(((..(((..((.(((((.((((......)).))))))).....))..)))..))).)))))))).)))	1.000 -38.90

rat

chromosome:2:122385302:122385386:-1

intergenic ## {Repeats: (CGG)n 1 20 -1 class=Simple_repeat,trf 1 20 0 class=trf,dust 122385320 122385339 0 class=dust}

novel_lenNOK_gcHIGH_multiarm_DicerNOK_loopOverlap_bulgeHIGH (1 loci)

sblock6097 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_loopOverlap_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

0.837

no

no

0.70/0.95

19/20/0.50

0.0 0.0

0.0 0.0

1 1

0 0

1 1

0 0

36 7

-5 28

5arm_loop 3arm

1 1

nd nd

0.63 0.30

6 4

2

2

0

-17

		reads	miRBase family seed
seed	-------------------------------------CCCUCCG---------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------------------------UCGAGCG-------------------	1	novel
		len	cloning frequencies
			T2S1	T3S1
	--------------------------------------------------------------------------------------GTCGAGCGCGGAGCGAAGTC-------	20	1	-
	------------------------------------GCCCTCCGGCCGCGCGCCG----------------------------------------------------------	19	-	1
rat	gggtcgtcctcccgcgcggtctgacgggaactcggcGCCCTCCGGCCGCGCGCCGccccgcggccctttctgtccgtctgggtccgGTCGAGCGCGGAGCGAAGTCtgactcg
	*****************************************************************************************************************
rat	((((((((((.((((((....((((.((.((((((((......(((((((........))))))).........)).)))))))).)))).)))))))).))....)))))).	0.930 -50.76

rat

chromosome:2:128732973:128733085:-1

intergenic ## {Repeats: GC_rich 12 31 -1 class=Low_complexity,GC_rich 1 34 -1 class=Low_complexity} ## {SimpF: 1 Eponine, -1 Eponine}

Back to summary page

other hairpins:

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