other hairpins
novel_lenNOK_shortStem (20559 loci)
block1920565 [novel_lenNOK_shortStem]
| 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 | 0.344 | no | no | 0.68/0.68 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 3 | 22 | 3arm | 1 | nd | 0.21 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------AGCCGCU-------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| -------------------------------------------------------------------GAGCCGCTCCTCCCAATGG--- | 19 | 1 | |
| rat | cgcccgggtgaggagttggccgtagtgagcagcaccgatcccttggggctaccggcggcgagcgcccGAGCCGCTCCTCCCAATGGcga | ||
| ***************************************************************************************** | |||
| rat | ((((..((.((((((.((((((..((..((.((.....(((....)))......)).))..))...)).))))))))))))...)))). | 0.460 -39.90 |
| rat | chromosome:6:26294479:26294567:-1 | intergenic ## {SimpF: oe = 0.95 -1 CpG} |
block1920699 [novel_lenNOK_shortStem]
| 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 | 0.848 | no | no | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 37 | 3arm | 1 | nd | 0.12 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------------------------CCGUCGU---------- | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| --------------------------------------------------------------------------------------------------CCCGTCGTTCTAGTGATC | 18 | 1 | |
| rat | gatccgcgagcggaaacggaatctgctccttccgggaaaggctgattgcgccgttgtgaatcgcatgtgtttaggagccgctgtggagacttaaagagCCCGTCGTTCTAGTGATC | ||
| ******************************************************************************************************************** | |||
| rat | (((.((((((((...((((..(((.((((...(((....((((....((((...((((...)))).)))).....)))).))).))))......)))..)))))))))..)))))) | 0.490 -32.30 |
| rat | chromosome:6:26400821:26400936:-1 | intergenic ## {SimpF: oe = 0.87 -1 CpG} |
block1920702 [novel_lenNOK_shortStem]
| 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 | 0.879 | no | no | 0.53/0.53 | 19/19/0.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 1 | 31 | 5arm | 1 | nd | 0.26 | 2 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --CCGUUGU---------------------------------------------------------------------------------------------------------- | 2 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -GCCGTTGTGAATCGCATGT----------------------------------------------------------------------------------------------- | 19 | 2 | |
| rat | cGCCGTTGTGAATCGCATGTgtttaggagccgctgtggagacttaaagagcccgtcgttctagtgatcgtgccaactaccattccaataaacttcatgtcttattttgctgtggt | ||
| ******************************************************************************************************************* | |||
| rat | .((((..(((((..(((((.(((((((((......(((.((.(((.(((((.....)))))..)))))...))).......))))..)))))..))))).....)))))..)))) | 0.830 -24.42 |
| rat | chromosome:6:26400774:26400888:-1 | intergenic ## {SimpF: oe = 0.87 -1 CpG} |
novel_lenNOK_loopOverlap_nonpairedHIGH_bulgeHIGH (16144 loci)
block100 [novel_lenNOK_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 | 0.137 | no | no | 0.39/0.39 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 36 | -2 | 3arm_loop | 2 | nd | 0.39 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------AGUUACU---------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| -----------------------------------------------------------AAGTTACTTGGAGTCATC------------------------------------ | 18 | 1 | |
| rat | gactaaaggtttgcaagcatagacgggactatggactttgaaaacactaggtttcactaAAGTTACTTGGAGTCATCtcaaaggtcaggttctgtgggcaacaaagaagagtt | ||
| ***************************************************************************************************************** | |||
| rat | ((((.....((((...((....((((((((.((..((((((..((.((((((...((....)).)))))).))....))))))..))))))))))..))..))))....)))) | 0.940 -26.20 |
| rat | chromosome:10:197305:197417:-1 | intergenic |
block115 [novel_lenNOK_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 | 0.013 | no | no | 0.47/0.47 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 10 | -4 | 5arm_loop | 2 | nd | 0.37 | 5 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------CCCCUAU------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------TCCCCTATTGTTGATTCCC-------------------------------------- | 19 | 1 | |
| rat | tacacgtcttTCCCCTATTGTTGATTCCCttatgtggacagtaagggaatcttttcactttgtgtgc | ||
| ******************************************************************* | |||
| rat | ((((((...(((((.(((((((.((........)).))))))).)))))...........)))))). | 0.900 -17.74 |
| rat | chromosome:10:243468:243534:-1 | intergenic |
block296 [novel_lenNOK_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 | 0.013 | no | no | 0.47/0.47 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 10 | -4 | 5arm_loop | 2 | nd | 0.37 | 5 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------CCCCUAU------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------TCCCCTATTGTTGATTCCC-------------------------------------- | 19 | 1 | |
| rat | tacacgtcttTCCCCTATTGTTGATTCCCttatgtggacagtaagggaatcttttcactttgtgtgc | ||
| ******************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061841 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061840 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061838 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061835 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061834 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000044108 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000046607 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061831 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000041358 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061830 ENSRNOG00000032748 LOC688339 | ||
| rat | ((((((...(((((.(((((((.((........)).))))))).)))))...........)))))). | 0.900 -17.74 |
| rat | chromosome:10:466064:466130:-1 | Same_strand|Intronic_coding|ENSRNOT00000061841|ENSRNOG00000032748 ## ENSRNOG00000032748|protein_coding|LOC688339|Multidrug resistance-associated protein 1 (ATP-binding cassette sub- family C member 1) (Leukotriene C(4) transporter) (LTC4 transporter). [Source:UniProtKB/Swiss-Prot;Acc:Q8CG09] |
block437 [novel_lenNOK_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 | 0.105 | no | no | 0.42/0.45 | 19/22/0.50 | 0.0 | 1.5 | 2 | 0 | 2 | 0 | 16 | -4 | 3arm_loop | 1 | nd | 0.45 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------CCAGCAU------------------------------ | 2 | miR-338 | |
| len | cloning frequencies | |||
| T5S1 | T5S2 | |||
| -------------------------------------TCCAGCATTTCACACTTTC------------------- | 19 | - | 1 | |
| -------------------------------------TCCAGCATTTCACACTTTCCAC---------------- | 22 | 1 | - | |
| rat | ggctatcctgctaaaggtgggtgcctatgcaattcttTCCAGCATTTCACACTTTCCACtaaagctagaagagct | |||
| *************************************************************************** | ||||
| ------------------------------------------------------------------------------------- | ENSRNOT00000004202 ENSRNOG00000003146 NP_001101731.1 | |||
| rat | ((((.((..(((...((((((((...((((...........))))....)))...)))))..)))..))..)))) | 0.940 -17.50 | ||
| rat | chromosome:10:655171:655245:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000004202|ENSRNOG00000003146 ## ENSRNOG00000003146|protein_coding|NP_001101731.1|similar to RIKEN cDNA 0610037P05 (RGD1305823), mRNA [Source:RefSeq_dna;Acc:NM_001108261] |
block639 [novel_lenNOK_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 | 0.367 | no | no | 0.32/0.32 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 33 | -4 | 3arm_loop | 1 | nd | 0.42 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------AACAGCA-------------------------------------------- | 1 | miR-21* |
| len | cloning frequencies | ||
| T4S2 | |||
| ------------------------------------------------TAACAGCAAAATCAAAGAC--------------------------------- | 19 | 1 | |
| rat | gttgcttgttaccacagtgtaacttggatggtactactgagaagctatTAACAGCAAAATCAAAGACtcaacaagagccctaaacatgtgacacaagtga | ||
| **************************************************************************************************** | |||
| rat | .((((((((...((((((....((((...(((.((..(((...(((......)))....))).)))))...))))........)).))))..)))))))) | 0.420 -17.50 |
| rat | chromosome:10:1117188:1117287:-1 | intergenic |
block1359 [novel_lenNOK_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 | 0.233 | no | no | 0.47/0.47 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 39 | -4 | 5arm_loop | 1 | nd | 0.47 | 5 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----------------------------------------GGGGGGG------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| ---------------------------------------GGGGGGGGGATTTATTTTT------------------------------------------------------- | 19 | 1 | |
| rat | gtagtttggttttcattttttgtttgttttcttttcttgGGGGGGGGGATTTATTTTTgttgtatttttttcatcctcagttatcattcagttatcattgatgggcttatacg | ||
| ***************************************************************************************************************** | |||
| rat | (((....(((..(((((...((.(((..........(((((((((..((..(((.......)))..))..)).)))))))........)))....))..))))))))..))). | 0.650 -15.87 |
| rat | chromosome:10:2691483:2691595:-1 | intergenic ## {Repeats: dust 2691548 2691557 0 class=dust} |
block1499 [novel_lenNOK_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 | 0.478 | no | no | 0.58/0.58 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 23 | -2 | 5arm_loop | 1 | nd | 0.47 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------UGAGGAG------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -----------------------GTGAGGAGTGTGAGGCTGT------------------------------------- | 19 | 1 | |
| rat | agaagtgatgcaaatgcagaataGTGAGGAGTGTGAGGCTGTaatggactctcatggaacattgcataccgtcgaaact | ||
| ******************************************************************************* | |||
| rat | .....(((((...(((((.....(((....(((.(((.((.....)).))).)))....))))))))..)))))..... | 0.890 -14.50 |
| rat | chromosome:10:3151538:3151616:-1 | intergenic |
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