other hairpins
novel_lenNOK_gcHIGH_randfoldOK (21 loci)
block2760249 [novel_lenNOK_gcHIGH_randfoldOK]
| 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 | 0.95/0.95 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 16 | 13 | 3arm | 1 | nd | 0.16 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------GGCGCGC--------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| --------------------------------------------------------------------GGGCGCGCGCGCGCGCGTC---------------- | 19 | 1 | |
| rat | gttgagaagcttgaatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtacacacacgcgcGGGCGCGCGCGCGCGCGTCtgtgtttcttttcaac | ||
| ******************************************************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000028973 ENSRNOG00000037808 | ||
| ..........................................................................................................<<<<<<< | ENSRNOT00000003724 ENSRNOG00000002784 Pou3f4 | ||
| rat | (((((((((...(((..((..(((((((((((((((.((((((((((((((....)))))))))))))).)))))))))))))))..))..)))))))))))) | 1.000 -59.60 |
| rat | chromosome:X:99215722:99215824:-1 | Same_strand|Intronic_coding|ENSRNOT00000028973|ENSRNOG00000037808 ## ENSRNOG00000037808|protein_coding|| ## {Repeats: GC_rich 1 22 -1 class=Low_complexity,dust 99215740 99215757 0 class=dust,GC_rich 1 18 -1 class=Low_complexity} |
block520907 [novel_lenNOK_gcHIGH_randfoldOK]
| 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 | 1.00/1.00 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 8 | 16 | 3arm | 1 | nd | 0.17 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------GGCGGGG------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| --------------------------------------------------------------------------GGGCGGGGCCGGCGCCCC-------- | 18 | 1 | |
| rat | tcccggcagaggggcgccgaactcaacgggcccttcgggcacttccgccgagctctcggctcggttcgtgtccgGGGCGGGGCCGGCGCCCCggggcggg | ||
| **************************************************************************************************** | |||
| rat | .(((.((...(((((((((..(((.....((((..(((((((....(((((((.....)))))))..))))))))))))))..)))))))))...))))) | 1.000 -63.90 |
| rat | chromosome:16:10156637:10156736:-1 | intergenic ## {Repeats: GC_rich 1 29 -1 class=Low_complexity,GC_rich 9 27 -1 class=Low_complexity} ## {SimpF: oe = 1.00 -1 CpG} |
block1679531 [novel_lenNOK_gcHIGH_randfoldOK]
| 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 | 1.00/1.00 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 20 | 3 | 5arm | 2 | nd | 0.06 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------GGGGGGG------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| --------------------GGGGGGGGGGGCGCCCCC-------------------------------------------------------------------- | 18 | 1 | |
| rat | ctccccaaaaaaacccggggGGGGGGGGGGGCGCCCCCcccgaggggttttttagggggggggtccccgccctttttttttttttcccccccctttttttgggggg | ||
| ********************************************************************************************************** | |||
| rat | (((((((((((((...((((((((((((((((.((((((((.............)))))))))))))).))).............))))))).))))))))))))) | 1.000 -70.23 |
| rat | chromosome:4:134932763:134932868:1 | intergenic ## {Repeats: trf 1 10 0 class=trf,GC_rich 7 25 1 class=Low_complexity,dust 134932720 134932731 0 class=dust,GC_rich 1 29 1 class=Low_complexity} |
novel_lenNOK_multiarm_DicerNOK_shortStem_nonpairedHIGH_bulgeHIGH (21 loci)
sblock10026 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.193 | no | no | 0.41/0.74 | 19/25/0.38 | 1.0 0.0 0.6 | 1.5 0.0 2.2 | 2 1 5 | 0 0 0 | 1 1 1 | 0 0 0 | 0 24 1 | 18 -9 13 | 5arm 5arm_loop 3arm | 1 1 1 | nd nd nd | 0.40 0.56 0.32 | 3 10 4 | 8 | 1 | 0 | 15 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------AUGAAAG------------------ | 3 | novel |
| seed | ---CCCAGGC------------------------------------------------------------------------------- | 1 | novel |
| seed | -----------------------------------------------------------------UGAAAGC----------------- | 1 | novel |
| seed | -------------------------CACAGAG--------------------------------------------------------- | 1 | novel |
| seed | ------------------------------------------------------------------GAAAGCA---------------- | 1 | novel |
| seed | -GCCCCAG--------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ---------------------------------------------------------------CATGAAAGCAATTCTTCCCCTCTTG- | 25 | 2 | |
| ---------------------------------------------------------------CATGAAAGCAATTCTTCCC------- | 19 | 1 | |
| ------------------------TCACAGAGGAGACCTGCCTAAGCCT---------------------------------------- | 25 | 1 | |
| ----------------------------------------------------------------ATGAAAGCAATTCTTCCCCTCT--- | 22 | 1 | |
| --CCCCAGGCAGGACAGACACC------------------------------------------------------------------- | 20 | 1 | |
| GGCCCCAGGCAGGACAGAC---------------------------------------------------------------------- | 19 | 1 | |
| -----------------------------------------------------------------TGAAAGCAATTCTTCCCCTC---- | 20 | 1 | |
| rat | GGCCCCAGGCAGGACAGACACCttTCACAGAGGAGACCTGCCTAAGCCTacaggtcagatactCATGAAAGCAATTCTTCCCCTCTTGc | ||
| ***************************************************************************************** | |||
| rat | .....((((.(((..(((...((((((..(((..((((((..........)))))).....))).))))))....)))...))))))). | 0.590 -21.70 |
| rat | chromosome:6:93607445:93607533:-1 | intergenic |
sblock10072 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.071 | no | no | 0.26/0.38 | 19/21/0.10 | 0.0 0.0 | 0.0 0.0 | 8 1 | 0 0 | 1 1 | 0 0 | 1 0 | 20 20 | 5arm 3arm | 1 1 | nd nd | 0.37 0.40 | 5 3 | 10 | 1 | 0 | 1 |
| reads | miRBase family seed | ||
| seed | --UUCAUAC---------------------------------------------------------------------------------- | 8 | novel |
| seed | -----------------------------------------------------------------------AGCUUUC------------- | 1 | novel |
| seed | ---UCAUACU--------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -ATTCATACTAAGAAGGAAA----------------------------------------------------------------------- | 19 | 8 | |
| ----------------------------------------------------------------------TAGCTTTCTGATTGGGTAAGT | 21 | 1 | |
| --TTCATACTAAGAAGGAAAA---------------------------------------------------------------------- | 19 | 1 | |
| rat | tATTCATACTAAGAAGGAAAagcaggcaggagtttgcttcatctgctccagaagcgttattcttttttcttagctttctgattgggtaagt | ||
| ******************************************************************************************* | |||
| rat | ((((((.....((((((..(((.(((.((((((.((((((..........))))))..)))))).))))))..))))))...))))))... | 0.880 -22.20 |
| rat | chromosome:6:122553438:122553528:-1 | intergenic |
sblock12301 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.027 | no | no | 0.52/0.58 | 19/21/0.60 | 0.2 0.0 | 0.2 0.0 | 4 1 | 0 0 | 2 1 | 0 0 | 4 0 | 28 39 | 5arm 3arm | 2 2 | nd nd | 0.43 0.56 | 4 4 | 5 | 2 | 10 | 4 |
| reads | miRBase family seed | |||
| seed | -----GACAGAC----------------------------------------------------------------------------------------------------------- | 3 | novel | |
| seed | ------ACAGACA---------------------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -----------------------------------------------------------------------------------------------------UGAAGCU----------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| ----TGACAGACAAGCCTCCACTCT---------------------------------------------------------------------------------------------- | 21 | 3 | - | |
| ----------------------------------------------------------------------------------------------------CTGAAGCTCACACAGGGAC | 19 | - | 1 | |
| -----GACAGACAAGCCTCCACTC----------------------------------------------------------------------------------------------- | 19 | - | 1 | |
| rat | acccTGACAGACAAGCCTCCACTCTctcctctgcctcttctgtggctcctctgtttgcagccagggtattgcccaaaaggcaagggctcctgagagtttgCTGAAGCTCACACAGGGAC | |||
| *********************************************************************************************************************** | ||||
| rat | .(((((..((...(((....((((((.((..(((((....((.(((..(((((........)))))....)))))..)))))..)).....))))))..)))....))....))))).. | 0.540 -39.10 | ||
| rat | chromosome:9:105084961:105085079:-1 | intergenic |
sblock12389 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.223 | no | no | 0.28/0.28 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 1 | 26 28 | 5arm 3arm | 1 1 | nd nd | 0.50 0.39 | 6 4 | 2 | 2 | -2 | 0 |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------------------------------------AAAGUUU----------- | 1 | novel | |
| seed | -GGGAGUU------------------------------------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T3S1 | |||
| TGGGAGTTGTTATTATTT-------------------------------------------------------------------------------------- | 18 | - | 1 | |
| -------------------------------------------------------------------------------------CAAAGTTTAAAATGTCCA- | 18 | 1 | - | |
| rat | TGGGAGTTGTTATTATTTaaatgtctctctcgcatcaaatgttttataaatcacaccagacaattgtatttaatagccagagggaCAAAGTTTAAAATGTCCAc | |||
| ******************************************************************************************************** | ||||
| rat | (((..(((......((((...(((((((((.((..(((.(((((.............))))).))).........)).)))))))))))))....)))..))). | 0.550 -18.32 | ||
| rat | chromosome:9:13119143:13119246:1 | intergenic |
sblock1989 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.362 | no | no | 0.42/0.55 | 19/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 0 | 20 14 | 5arm 3arm | 1 1 | nd nd | 0.40 0.33 | 2 4 | 2 | 1 | 0 | -3 |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------CACUGUU----------- | 1 | novel |
| seed | -GCGAGUC------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| AGCGAGTCTGTTGGAAGTGC------------------------------------------------------------ | 20 | 1 | |
| -------------------------------------------------------------TCACTGTTGTCTTAGTCTC | 19 | 1 | |
| rat | AGCGAGTCTGTTGGAAGTGCtgggcctttacccttccagtttgctttgctgttcctgggccTCACTGTTGTCTTAGTCTC | ||
| ******************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000016427 ENSRNOG00000012031 St8sia2 | ||
| rat | ...(((.(((..((.((((..((((((.........((((.......)))).....))))))))))....)).))).))) | 0.940 -19.64 |
| rat | chromosome:1:129039189:129039268:1 | Same_strand|Intronic_coding|ENSRNOT00000016427|ENSRNOG00000012031 ## ENSRNOG00000012031|protein_coding|St8sia2|Alpha-2,8-sialyltransferase 8B (EC 2.4.99.-) (ST8Sia II) (Sialyltransferase X) (STX). [Source:UniProtKB/Swiss-Prot;Acc:Q07977] |
sblock2028 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.201 | no | no | 0.28/0.56 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 0 | 34 23 | 5arm 3arm | 1 1 | nd nd | 0.72 0.35 | 11 4 | 2 | 2 | 0 | -11 |
| reads | miRBase family seed | |||
| seed | -------------------------------------------------------------------------------AGGGUGG---------- | 1 | novel | |
| seed | -UUAAUUU---------------------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T3S2 | |||
| ------------------------------------------------------------------------------CAGGGTGGCTTTGTGTAC | 18 | 1 | - | |
| CTTAATTTATCTTGCACT------------------------------------------------------------------------------ | 18 | - | 1 | |
| rat | CTTAATTTATCTTGCACTtttacactgaagtatgtacagttctgtagatttggcccagctcttagtgtgttaatatttCAGGGTGGCTTTGTGTAC | |||
| ************************************************************************************************ | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000040420 ENSRNOG00000018322 Picalm | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000025192 ENSRNOG00000018322 Picalm | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000025415 ENSRNOG00000018322 Picalm | |||
| rat | ............(((((..((((.(((((((((..(((...(((.(((.(((...))).))))))..)))..))))))))).))))....))))). | 0.790 -19.90 | ||
| rat | chromosome:1:146774460:146774555:1 | Same_strand|Intronic_coding|ENSRNOT00000040420|ENSRNOG00000018322 ## ENSRNOG00000018322|protein_coding|Picalm|Phosphatidylinositol-binding clathrin assembly protein (Clathrin assembly lymphoid myeloid leukemia protein) (rCALM). [Source:UniProtKB/Swiss-Prot;Acc:O55012] |
sblock3439 [novel_lenNOK_multiarm_DicerNOK_shortStem_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 | 0.179 | no | no | 0.53/0.63 | 19/19/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 4 4 | 13 2 | 5arm 3arm | 1 1 | nd nd | 0.53 0.32 | 5 4 | 2 | 1 | 0 | 3 |
| reads | miRBase family seed | ||
| seed | -----UGGGUAA------------------------------------------------------ | 1 | novel |
| seed | --------------------------------------------GCACCAC--------------- | 1 | miR-770 |
| len | cloning frequencies | ||
| T5S1 | |||
| -------------------------------------------TGCACCACGTGGCCGGAAA---- | 19 | 1 | |
| ----CTGGGTAACGAGTGGACTA------------------------------------------- | 19 | 1 | |
| rat | gcagCTGGGTAACGAGTGGACTAtcttaactgcagcacgatgcTGCACCACGTGGCCGGAAAagcc | ||
| ****************************************************************** | |||
| rat | ((..((((.((....((((...........((((((.....)))))))))).)).))))....)). | 0.960 -20.70 |
| rat | chromosome:12:5628439:5628504:1 | intergenic |
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