other hairpins
novel_shortStem_randfoldOK_bulgeHIGH (87 loci)
block2521544 [novel_shortStem_randfoldOK_bulgeHIGH]
| 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 | 0.007 | no | no | 0.35/0.35 | 23/23/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 0 | 5arm | 1 | nd | 0.22 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -UGUUUAA----------------------------------------------------- | 2 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ATGTTTAAGATTAGCCCACAACT-------------------------------------- | 23 | 2 | |
| rat | ATGTTTAAGATTAGCCCACAACTattttcagtctcttctgtgggctattagaagataaaca | ||
| ************************************************************* | |||
| rat | .((((((....((((((((((((......)))......)))))))))........)))))) | 1.000 -15.40 |
| rat | chromosome:9:71302188:71302248:-1 | intergenic |
block2590870 [novel_shortStem_randfoldOK_bulgeHIGH]
| 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 | 0.002 | no | no | 0.90/0.90 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 12 | 5arm | 2 | nd | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -CCCACGG------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| TCCCACGGGGGGGGGGGGGC------------------------------------------------ | 20 | 1 | |
| rat | TCCCACGGGGGGGGGGGGGCtcctgtcattcatgagcctgggtgaggagctccttactaaagtggggg | ||
| ******************************************************************** | |||
| rat | ((((((....((..(((((((((..(((((((......))))))))))))))))..))...)))))). | 1.000 -36.30 |
| rat | chromosome:9:39575590:39575657:1 | intergenic ## {Repeats: dust 39575596 39575608 0 class=dust} |
block2609677 [novel_shortStem_randfoldOK_bulgeHIGH]
| 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 | 0.003 | no | no | 0.64/0.64 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 21 | 3arm | 1 | nd | 0.27 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------UGCCUUG------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------------------------------------------------------------------GTGCCTTGCGAGGGAGAAACGC---- | 22 | 1 | |
| rat | aggtggttcctgtctacgtagggccccacagctgtagggcgccagggagggcgagtgcgcagagttgtggGTGCCTTGCGAGGGAGAAACGCcacc | ||
| ************************************************************************************************ | |||
| rat | .((((((..((.(((.((((((((((((((((((((...((((......))))..)))....))))))))).))))))))))).))....)))))) | 1.000 -50.20 |
| rat | chromosome:9:63255223:63255318:1 | intergenic |
block2764359 [novel_shortStem_randfoldOK_bulgeHIGH]
| 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 | 0.007 | no | no | 0.25/0.25 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 4 | 3arm | 1 | nd | 0.26 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------UUUUUUU------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ------------------------------------------TTTTTTTTTTCCAAAAGTCC | 20 | 1 | |
| rat | gactttaaacttaagattcatgagaaaaaaacttgttcaagtTTTTTTTTTTCCAAAAGTCC | ||
| ************************************************************** | |||
| ------------------------------------------------------------------------ | ENSRNOT00000006778 ENSRNOG00000004869 Dach2_predicted | ||
| ------------------------------------------------------------------------ | ENSRNOT00000011927 ENSRNOG00000004869 Dach2_predicted | ||
| rat | ((((((...............(((((((((((((....)))))))))))))....)))))). | 0.780 -11.81 |
| rat | chromosome:X:102079876:102079937:-1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000006907|ENSRNOG00000004869 ## Opposite_strand|Intronic_coding|ENSRNOT00000011927|ENSRNOG00000004869 ## ENSRNOG00000004869|protein_coding|Dach2_predicted| ## {Repeats: dust 102079886 102079896 0 class=dust} |
block1600402 [novel_shortStem_randfoldOK_bulgeHIGH]
| 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 | 0.50/0.50 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 3 | 29 | 5arm | 1 | nd | 0.20 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----UUCAGCC------------------------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ---TTTCAGCCCAGTATCCTCTC------------------------------------------------------------------------------------ | 20 | 1 | |
| rat | ggtTTTCAGCCCAGTATCCTCTCgaatgttcactctcttccaaatcttactggcagcagagggatgtggggaagtgggatgtggggggaagaggggctgaagagtca | ||
| *********************************************************************************************************** | |||
| rat | ((((((((((((....((((((((....((((((.((.((((.((((..(((....)))..)))).))))))))))))...))))))))....)))))))))).)). | 1.000 -47.40 |
| rat | chromosome:4:164236903:164237009:-1 | intergenic |
novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (83 loci)
block25142 [novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]
| 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 | 0.586 | no | no | 0.50/0.59 | 18/26/0.60 | 0.2 | 0.8 | 582 | 0 | 10 | 0 | 13 | -7 | 5arm_loop_3arm | 1 | nd | 0.44 | 5 | 1512 | 10 | na | na |
| reads | miRBase family seed | |||||||||||
| seed | ---------------CUCUGUG-------------------------------------------- | 851 | novel | |||||||||
| seed | --------------GCUCUGU--------------------------------------------- | 439 | novel | |||||||||
| seed | ----------------UCUGUGA------------------------------------------- | 220 | novel | |||||||||
| seed | -------------UGCUCUG---------------------------------------------- | 2 | novel | |||||||||
| len | cloning frequencies | |||||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| --------------GCTCTGTGATGAACCCCATGC------------------------------- | 21 | 6 | 6 | 27 | 14 | 318 | 41 | 11 | 8 | 20 | 7 | |
| --------------GCTCTGTGATGAACCCCA---------------------------------- | 18 | 5 | 5 | 12 | 7 | 162 | 35 | 5 | 3 | 7 | 3 | |
| -------------TGCTCTGTGATGAACCCCATGC------------------------------- | 22 | 3 | 4 | 4 | 10 | 102 | 20 | 7 | 5 | 9 | 3 | |
| ---------------CTCTGTGATGAACCCCATGC------------------------------- | 20 | 7 | 2 | 21 | 6 | 82 | 10 | 10 | 3 | 7 | 4 | |
| -------------TGCTCTGTGATGAACCCCA---------------------------------- | 19 | 5 | 8 | 12 | 10 | 60 | 23 | 3 | 1 | 7 | 1 | |
| -------------TGCTCTGTGATGAACCCC----------------------------------- | 18 | 4 | 1 | 3 | 6 | 68 | 14 | 4 | - | 9 | 2 | |
| --------------GCTCTGTGATGAACCCCAT--------------------------------- | 19 | 1 | 1 | 6 | 1 | 31 | 14 | 5 | 1 | 1 | 6 | |
| --------------GCTCTGTGATGAACCCCATG-------------------------------- | 20 | 1 | 2 | 7 | - | 16 | 7 | 1 | - | 1 | 2 | |
| --------------GCTCTGTGATGAACCCCATGCG------------------------------ | 22 | - | - | 2 | 4 | 15 | 4 | - | - | - | 1 | |
| ---------------CTCTGTGATGAACCCCATG-------------------------------- | 19 | - | 1 | 3 | 6 | 6 | 2 | - | 1 | 4 | 1 | |
| -------------TGCTCTGTGATGAACCCCAT--------------------------------- | 20 | 1 | - | - | - | 13 | 1 | 1 | - | 2 | - | |
| ---------------CTCTGTGATGAACCCCAT--------------------------------- | 18 | 1 | - | 1 | 1 | 10 | 1 | 1 | - | 2 | - | |
| ---------------CTCTGTGATGAACCCCATGCG------------------------------ | 21 | - | - | 1 | 3 | 4 | 4 | - | 1 | 1 | - | |
| --------------GCTCTGTGATGAACCCCATGCGTGTC-------------------------- | 26 | - | - | - | - | 4 | 2 | 1 | - | - | - | |
| --------------GCTCTGTGATGAACCCCATGCGT----------------------------- | 23 | 1 | - | - | 2 | 1 | 2 | - | - | - | 1 | |
| ---------------CTCTGTGATGAACCCCATGCGTGTCA------------------------- | 26 | - | - | - | - | 3 | 3 | - | - | - | - | |
| -------------TGCTCTGTGATGAACCCCATG-------------------------------- | 21 | - | 1 | - | 1 | 4 | - | - | - | - | - | |
| --------------GCTCTGTGATGAACCCCATGCGTG---------------------------- | 24 | - | - | - | 2 | - | 3 | - | - | - | - | |
| -------------TGCTCTGTGATGAACCCCATGCG------------------------------ | 23 | 1 | - | - | - | 2 | 1 | - | - | - | - | |
| ---------------CTCTGTGATGAACCCCATGCGTGTC-------------------------- | 25 | - | - | - | - | - | - | - | 1 | 2 | - | |
| ---------------CTCTGTGATGAACCCCATGCGT----------------------------- | 22 | - | 1 | - | - | - | - | - | - | - | 1 | |
| -------------TGCTCTGTGATGAACCCCATGCGTG---------------------------- | 25 | - | - | - | - | 1 | 1 | - | - | - | - | |
| ---------------CTCTGTGATGAACCCCATGCGTG---------------------------- | 23 | - | - | 2 | - | - | - | - | - | - | - | |
| ------------TTGCTCTGTGATGAACCCCATGC------------------------------- | 23 | - | - | - | - | - | - | - | - | - | 1 | |
| -------------TGCTCTGTGATGAACCCCATGCGT----------------------------- | 24 | - | - | - | - | 1 | - | - | - | - | - | |
| ------------TTGCTCTGTGATGAACCCCA---------------------------------- | 20 | - | - | - | - | 1 | - | - | - | - | - | |
| rat | gttggaattgagtTGCTCTGTGATGAACCCCATGCgtgtcatctgagcctggcttccctgttaacc | |||||||||||
| ****************************************************************** | ||||||||||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000049048 ENSRNOG00000030628 Eif4a1 | |||||||||||
| rat | (((((....(((((((((...(((((((.......)).))))).))))..))))).....))))). | 0.990 -14.20 | ||||||||||
| rat | chromosome:10:56486266:56486331:-1 | Same_strand|Intronic_coding|ENSRNOT00000049048|ENSRNOG00000030628 ## ENSRNOG00000030628|protein_coding|Eif4a1|eukaryotic translation initiation factor 4A1 [Source:RefSeq_peptide;Acc:NP_955404] |
block69762 [novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]
| 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 | 0.549 | no | no | 0.50/0.53 | 18/19/0.00 | 0.0 | 0.0 | 54 | 0 | 10 | 0 | 30 | -3 | 5arm_loop | 1 | nd | 0.39 | 4 | 61 | 10 | na | na |
| reads | miRBase family seed | |||||||||||
| seed | -------------------------------CCUUUGG--------------------------------------------------------- | 61 | novel | |||||||||
| len | cloning frequencies | |||||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| ------------------------------TCCTTTGGTTTCCCCCAA----------------------------------------------- | 18 | 9 | 2 | 4 | 4 | 12 | 8 | 5 | 12 | 2 | 1 | |
| ------------------------------TCCTTTGGTTTCCCCCAAG---------------------------------------------- | 19 | - | - | - | - | - | 1 | - | - | - | 1 | |
| rat | tggaagtgatagtatctcaggttatctcatTCCTTTGGTTTCCCCCAAgaattggggaagcgagttgttcagctgccgggtcatgttgtattttt | |||||||||||
| *********************************************************************************************** | ||||||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000007621 ENSRNOG00000005389 Ppp2ca | |||||||||||
| rat | .(((((((...((..(((.(((......((..(((..((((((((........)))))))))))..))......))))))..))....))))))) | 0.660 -21.40 | ||||||||||
| rat | chromosome:10:37622466:37622560:1 | Same_strand|Intronic_coding|ENSRNOT00000007621|ENSRNOG00000005389 ## ENSRNOG00000005389|protein_coding|Ppp2ca|Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform (EC 3.1.3.16) (PP2A-alpha). [Source:UniProtKB/Swiss-Prot;Acc:P63331] |
block84430 [novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]
| 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 | 0.022 | no | no | 0.60/0.67 | 18/21/0.07 | 0.0 | 0.0 | 340 | 0 | 10 | 0 | 38 | -1 | 3arm_loop | 3 | nd | 0.44 | 4 | 549 | 10 | na | na |
| reads | miRBase family seed | |||||||||||
| seed | --------------------------------------------------------------GGGGGUU------------------------------------------------ | 549 | novel | |||||||||
| len | cloning frequencies | |||||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| -------------------------------------------------------------TGGGGGTTTTTGGGGGGG-------------------------------------- | 18 | 225 | 29 | 115 | 13 | 19 | 22 | 6 | 43 | 20 | 8 | |
| -------------------------------------------------------------TGGGGGTTTTTGGGGGGGTT------------------------------------ | 20 | 14 | 3 | 10 | - | - | - | - | 5 | 1 | - | |
| -------------------------------------------------------------TGGGGGTTTTTGGGGGGGT------------------------------------- | 19 | 3 | 4 | 2 | 1 | - | - | - | 2 | - | 1 | |
| -------------------------------------------------------------TGGGGGTTTTTGGGGGGGTTG----------------------------------- | 21 | - | - | 1 | - | - | - | 1 | 1 | - | - | |
| rat | gctatctgtgccacagatgaatttttcttttacattttctttttgtttctgtttctgtttcTGGGGGTTTTTGGGGGGGttgttttgtttttgtttgtttgtttggtttggtttggt | |||||||||||
| ********************************************************************************************************************* | ||||||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000011403 ENSRNOG00000008178 Nxn | |||||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000050232 ENSRNOG00000008178 Nxn | |||||||||||
| rat | ((((.(((.((((((((..(((.........(((((..(((...((..((............))..))....)))..))).)).........)))..)))))..))).)))..)))) | 1.000 -17.67 | ||||||||||
| rat | chromosome:10:67896798:67896914:1 | Same_strand|Intronic_coding|ENSRNOT00000011403|ENSRNOG00000008178 ## ENSRNOG00000008178|protein_coding|Nxn|nucleoredoxin Gene [Source:MGI (curated);Acc:Nxn-001] ## {Repeats: trf 36 38 0 class=trf,T-rich 43 64 1 class=Low_complexity,dust 67896860 67896881 0 class=dust,T-rich 4 90 1 class=Low_complexity,trf 1 3 0 class=trf} |
block90070 [novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]
| 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 | 0.075 | no | no | 0.37/0.39 | 18/19/0.00 | 0.0 | 0.0 | 93 | 0 | 10 | 0 | 22 | -3 | 3arm_loop | 1 | nd | 0.50 | 4 | 123 | 10 | na | na |
| reads | miRBase family seed | |||||||||||
| seed | -----------------------------------UAAGGAC-------------------------------- | 121 | novel | |||||||||
| seed | ------------------------------------AAGGACU------------------------------- | 2 | novel | |||||||||
| len | cloning frequencies | |||||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| ----------------------------------ATAAGGACTGTAAGAAGC---------------------- | 18 | 3 | 5 | 38 | 6 | 1 | 5 | 16 | 6 | 27 | 12 | |
| -----------------------------------TAAGGACTGTAAGAAGCA--------------------- | 18 | 1 | - | - | - | 1 | - | - | - | - | - | |
| ----------------------------------ATAAGGACTGTAAGAAGCA--------------------- | 19 | 1 | - | - | - | - | - | - | 1 | - | - | |
| rat | gatttggattctctatatactcaaacatcttgttATAAGGACTGTAAGAAGCaatagaggtcagaatagaatca | |||||||||||
| ************************************************************************** | ||||||||||||
| rat | (((((.((.(((((((....((..(((((((......)))).)))..))....)))))))))......))))). | 0.970 -14.10 | ||||||||||
| rat | chromosome:10:79534595:79534668:1 | intergenic |
block97413 [novel_lenNOK_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]
| 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 | 0.140 | no | no | 0.53/0.58 | 18/23/0.02 | 0.0 | 0.0 | 88 | 0 | 6 | 0 | 53 | -14 | 3arm_loop | 1 | nd | 0.47 | 4 | 108 | 6 | na | na |
| reads | miRBase family seed | |||||||
| seed | ------------------------------------------------------CUGCUAA---------------------------------------------------- | 105 | novel | |||||
| seed | --------------------------------------------------------GCUAAUG-------------------------------------------------- | 2 | novel | |||||
| seed | -----------------------------------------------------------AAUGCUG----------------------------------------------- | 1 | novel | |||||
| len | cloning frequencies | |||||||
| T1S1 | T1S2 | T2S2 | T3S1 | T5S1 | T5S2 | |||
| -----------------------------------------------------CCTGCTAATGCTGGTCTGG----------------------------------------- | 19 | 3 | 4 | 4 | 1 | 88 | 1 | |
| -----------------------------------------------------CCTGCTAATGCTGGTCTG------------------------------------------ | 18 | - | - | - | - | 4 | - | |
| ----------------------------------------------------------TAATGCTGGTCTGGCTGCCCAAC-------------------------------- | 23 | - | - | - | - | 1 | - | |
| -------------------------------------------------------TGCTAATGCTGGTCTGGCT--------------------------------------- | 19 | - | - | - | - | 1 | - | |
| -------------------------------------------------------TGCTAATGCTGGTCTGGCTG-------------------------------------- | 20 | - | - | - | - | 1 | - | |
| rat | ctgggacctaaagccgaccctaagagaggagtctgttctcaatggcttccaagCCTGCTAATGCTGGTCTGGctgcccaacattcctcctctagactggaggccagagctgag | |||||||
| ***************************************************************************************************************** | ||||||||
| rat | ((.((..((...(((..((.....(((((((..((((......(((..(((..((.((....)).))..)))..))).))))...))))))).....)).))).))..)).)) | 0.760 -37.10 | ||||||
| rat | chromosome:10:92625730:92625842:1 | intergenic |
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