miR-Intess™

other hairpins

novel_loopOverlap_mirtron_nonpairedHIGH (24 loci)

block2648972 [novel_loopOverlap_mirtron_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

0.317

no

no

0.57/0.57

21/21/1.00

0.0

0.0

2

0

1

0

22

-1

5arm_loop

1

1

0.43

3

2

1

na

na

		reads	miRBase family seed
seed	-----------------------CCAUCCU--------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1
	----------------------ACCATCCTGTGTCTTCCCGCA-------------------------------------	21	2
rat	gggggaactgcagggccagtttACCATCCTGTGTCTTCCCGCAggtgagcgagatggaggtgaacggacagttcgaatcc
	********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000022351 ENSRNOG00000016196 Dlgap1
	+++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000056303 ENSRNOG00000016196 Dlgap1
	+++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000047288 ENSRNOG00000016196 Dlgap1
rat	(((.((((((.....((.(((((((.(((...((((...(((......))))))))))))))))))).))))))...)))	0.940 -26.50

rat

chromosome:9:109851202:109851281:1

Same_strand|Intronic_coding|ENSRNOT00000022351|ENSRNOG00000016196 ## ENSRNOG00000016196|protein_coding|Dlgap1|Disks large-associated protein 1 (DAP-1) (Guanylate kinase-associated protein) (rGKAP) (SAP90/PSD-95-associated protein 1) (SAPAP1) (PSD- 95/SAP90-binding protein 1). [Source:UniProtKB/Swiss-Prot;Acc:P97836]

block1435392 [novel_loopOverlap_mirtron_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

0.470

no

no

0.40/0.40

20/20/1.00

0.0

0.0

1

0

1

0

26

-3

5arm_loop_3arm

1

0

0.45

3

1

1

na

na

		reads	miRBase family seed
seed	---------------------------UUUCUCA--------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------TTTTCTCATTACCTTCCCAG--------------------------------------------	20	1
rat	ttcctgctttccaaacagtaacaagtTTTTCTCATTACCTTCCCAGggaagacaagggtgctctggctaagctggtggaagctattagga
	******************************************************************************************
	----------------------------------------------------------------------------------------------------	ENSRNOT00000044775 ENSRNOG00000039888 Q8CFC4_RAT
	+++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000006754 ENSRNOG00000005071 RGD1565869_predicted
rat	.((((((.(((((..((((..(((((....(((.((..(((((...)))))..))))).))).)).....)))).)))))))....))))	0.470 -19.90

rat

chromosome:3:5810124:5810213:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000061264|ENSRNOG00000039888 ## Same_strand|Intronic_coding|ENSRNOT00000006754|ENSRNOG00000005071 ## Opposite_strand|Intronic_coding|ENSRNOT00000044775|ENSRNOG00000039888 ## ENSRNOG00000005071|protein_coding|RGD1565869_predicted|60S ribosomal protein L7a. [Source:UniProtKB/Swiss-Prot;Acc:P62425] ## ENSRNOG00000039888|protein_coding|Q8CFC4_RAT|Histo-blood group ABO transferase (B blood group galactosyltransferase). [Source:UniProtKB/TrEMBL;Acc:Q8CFC4]

novel_Multihit_shortStem_randfoldOK_nonpairedHIGH (23 loci)

block211076 [novel_Multihit_shortStem_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

no

0.009

no

no

0.59/0.59

22/22/1.00

0.0

0.0

1

0

1

0

4

28

5arm

64

nd

0.36

2

1

1

na

na

		reads	miRBase family seed
seed	-----CCUGAGC-------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----TCCTGAGCAGCTCCTGAACTCC-----------------------------------------------------------------------------------------	22	1
rat	gagcTCCTGAGCAGCTCCTGAACTCCtgagcagctcctgacctcctgagcagctcctgagcaactcctgacctactgagcagctcctgacctcctgagcagctcctaagcagctc
	*******************************************************************************************************************
rat	(((((.((((((.((((..((..((..((((.((((......((..(((..(((....)))..)))..))......)))).))))..))..))..)))).))))...)).)))))	0.980 -38.50

rat

chromosome:12:8611398:8611512:1

intergenic ## {Repeats: dust 8611324 8611346 0 class=dust,trf 16213 16235 0 class=trf,trf 16203 16225 0 class=trf}

block211101 [novel_Multihit_shortStem_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

no

0.001

no

no

0.59/0.59

22/22/1.00

0.0

0.0

1

0

1

0

4

28

5arm

64

nd

0.32

2

1

1

na

na

		reads	miRBase family seed
seed	-----CCUGAGC----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----TCCTGAGCAGCTCCTGAACTCC--------------------------------------------------------------------------------------	22	1
rat	gaacTCCTGAGCAGCTCCTGAACTCCtgagcagctcctgacctcctgagcagcttctgagcagctcctgagctcctaagcagctcctgagctcctgagctgctcctgagctc
	****************************************************************************************************************
rat	((.(((..(((((((((..((.(((..((((.(((...((.(((..((((.(((....))).))))..))).))...))).))))..))).))..)))))))))..))).))	0.990 -48.60

rat

chromosome:12:8617471:8617582:1

intergenic ## {Repeats: trf 10140 10162 0 class=trf,trf 10130 10152 0 class=trf}

block211125 [novel_Multihit_shortStem_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

no

0.001

no

no

0.59/0.59

22/22/1.00

0.0

0.0

1

0

1

0

4

28

5arm

64

nd

0.32

2

1

1

na

na

		reads	miRBase family seed
seed	-----CCUGAGC----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----TCCTGAGCAGCTCCTGAACTCC--------------------------------------------------------------------------------------	22	1
rat	gaacTCCTGAGCAGCTCCTGAACTCCtgagcagctcctgacctcctgagcagcttctgagcagctcctgagctcctaagcagctcctgagctcctgagctgctcctgagctc
	****************************************************************************************************************
rat	((.(((..(((((((((..((.(((..((((.(((...((.(((..((((.(((....))).))))..))).))...))).))))..))).))..)))))))))..))).))	0.990 -48.60

rat

chromosome:12:8626181:8626292:1

intergenic ## {Repeats: trf 1430 1452 0 class=trf,trf 1420 1442 0 class=trf}

block334211 [novel_Multihit_shortStem_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

no

0.001

no

no

0.45/0.45

20/20/1.00

0.0

0.0

1

0

1

0

0

9

5arm

31

nd

0.35

3

1

1

na

na

		reads	miRBase family seed
seed	-GACAGAU----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	AGACAGATATCCTTGGTCCT----------------------------------------	20	1
rat	AGACAGATATCCTTGGTCCTtgtcctgggaaccccaggataagaaaacatatatcaagtc
	************************************************************
	----------------------------------------------------------------------	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000041850 ENSRNOG00000033121 LOC501237
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061383 ENSRNOG00000026588 LOC680812
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061382 ENSRNOG00000026588 LOC680812
rat	.(((.(((((...((...(((((((((((...)))))))))))....)).)))))..)))	1.000 -21.60

rat

chromosome:14:4351527:4351586:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000049600|ENSRNOG00000033121 ## Same_strand|Boundary_non-coding|ENSRNOT00000061378|ENSRNOG00000026588 ## Same_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000042632|ENSRNOG00000033121 ## Opposite_strand|Intronic_coding|ENSRNOT00000041850|ENSRNOG00000033121 ## Same_strand|Intronic_coding|ENSRNOT00000061382|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block334286 [novel_Multihit_shortStem_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

no

0.001

no

no

0.45/0.45

20/20/1.00

0.0

0.0

1

0

1

0

0

8

5arm

31

nd

0.35

3

1

1

na

na

		reads	miRBase family seed
seed	-GACAGAU----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	AGACAGATATCCTTGGTCCT----------------------------------------	20	1
rat	AGACAGATATCCTTGGTCCTtgtcctggaaaccccaggataagaaaacatatatcaagtc
	************************************************************
	----------------------------------------------------------------------	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
rat	.(((.(((((...((...((((((((((.....))))))))))....)).)))))..)))	1.000 -19.90

rat

chromosome:14:4414090:4414149:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000049600|ENSRNOG00000033121 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000039905|ENSRNOG00000033121 ## Same_strand|Boundary_non-coding|ENSRNOT00000061378|ENSRNOG00000026588 ## Same_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block334423 [novel_Multihit_shortStem_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

no

0.001

no

no

0.45/0.45

20/20/1.00

0.0

0.0

1

0

1

0

0

9

5arm

31

nd

0.35

3

1

1

na

na

		reads	miRBase family seed
seed	-GACAGAU----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	AGACAGATATCCTTGGTCCT----------------------------------------	20	1
rat	AGACAGATATCCTTGGTCCTtgtcctgggaaccccaggataagaaaacatatatcaagtc
	************************************************************
	----------------------------------------------------------------------	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061378 ENSRNOG00000026588 LOC680812
rat	.(((.(((((...((...(((((((((((...)))))))))))....)).)))))..)))	1.000 -21.60

rat

chromosome:14:4528359:4528418:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000049600|ENSRNOG00000033121 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000039905|ENSRNOG00000033121 ## Same_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## Same_strand|Intronic_coding|ENSRNOT00000061378|ENSRNOG00000026588 ## Same_strand|Boundary_non-coding|ENSRNOT00000061383|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block334506 [novel_Multihit_shortStem_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

no

0.001

no

no

0.45/0.45

20/20/1.00

0.0

0.0

1

0

1

0

0

9

5arm

31

nd

0.35

3

1

1

na

na

		reads	miRBase family seed
seed	-GACAGAU----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	AGACAGATATCCTTGGTCCT----------------------------------------	20	1
rat	AGACAGATATCCTTGGTCCTtgtcctgggaaccccaggataagaaaacatatatcaagtc
	************************************************************
	----------------------------------------------------------------------	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	----------------------------------------------------------------------	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061378 ENSRNOG00000026588 LOC680812
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061377 ENSRNOG00000039950
rat	.(((.(((((...((...(((((((((((...)))))))))))....)).)))))..)))	1.000 -21.60

rat

chromosome:14:4575469:4575528:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000049600|ENSRNOG00000033121 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000039905|ENSRNOG00000033121 ## Same_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## Same_strand|Intronic_coding|ENSRNOT00000061378|ENSRNOG00000026588 ## Same_strand|Boundary_non-coding|ENSRNOT00000061383|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000039950|protein_coding|| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block1057591 [novel_Multihit_shortStem_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

no

0.008

no

no

0.55/0.55

20/20/1.00

0.0

0.0

1

0

1

0

3

19

3arm

12

nd

0.35

3

1

1

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------GAUCCCC---------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------------------------------------------------------------AGATCCCCCAAAGGCACATG---	20	1
rat	caggtggtgtcacaggcacatctgaggttcccaggaagaacacaagatgcccaaatttccagttcttctcctcAGATCCCCCAAAGGCACATGtga
	************************************************************************************************
rat	((.((.(((((...((...((((((((......((((((((...((((......))))...))))))))))))))))...))...))))))).)).	0.990 -30.10

rat

chromosome:20:2650802:2650897:-1

intergenic

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other hairpins:

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