other hairpins
novel_lenNOK_shortStem_randfoldOK_nonpairedHIGH_bulgeHIGH (779 loci)
block1086256 [novel_lenNOK_shortStem_randfoldOK_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 | 0.003 | no | no | 0.78/0.78 | 18/18/0.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 4 | 5arm | 2 | nd | 0.33 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------GGCCCCA------------------ | 1 | novel |
| seed | -GGCCCCA-------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| --------------------TGGCCCCACCCCTCTGGG-------- | 18 | 1 | |
| TGGCCCCACCCCTCTGGG---------------------------- | 18 | 1 | |
| rat | TGGCCCCACCCCTCTGGGggTGGCCCCACCCCTCTGGGggaagcca | ||
| ********************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000018892 ENSRNOG00000026049 NP_001014056.1 | ||
| rat | .(((....(((((..(((((((....)))))))..)))))..))). | 0.960 -28.80 |
| rat | chromosome:20:47787094:47787139:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000018892|ENSRNOG00000026049 ## ENSRNOG00000026049|protein_coding|NP_001014056.1|glutaminyl-tRNA synthase (glutamine-hydrolyzing)-like 1 [Source:RefSeq_peptide;Acc:NP_001014056] ## {Repeats: trf 3 21 0 class=trf} |
block1086257 [novel_lenNOK_shortStem_randfoldOK_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 | 0.003 | no | no | 0.78/0.78 | 18/18/0.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 4 | 5arm | 2 | nd | 0.33 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------GGCCCCA------------------ | 1 | novel |
| seed | -GGCCCCA-------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| --------------------TGGCCCCACCCCTCTGGG-------- | 18 | 1 | |
| TGGCCCCACCCCTCTGGG---------------------------- | 18 | 1 | |
| rat | TGGCCCCACCCCTCTGGGggTGGCCCCACCCCTCTGGGggaagcca | ||
| ********************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000018892 ENSRNOG00000026049 NP_001014056.1 | ||
| rat | .(((....(((((..(((((((....)))))))..)))))..))). | 0.960 -28.80 |
| rat | chromosome:20:47787094:47787139:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000018892|ENSRNOG00000026049 ## ENSRNOG00000026049|protein_coding|NP_001014056.1|glutaminyl-tRNA synthase (glutamine-hydrolyzing)-like 1 [Source:RefSeq_peptide;Acc:NP_001014056] ## {Repeats: trf 23 40 0 class=trf} |
block1093339 [novel_lenNOK_shortStem_randfoldOK_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 | 0.007 | no | no | 0.68/0.68 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 31 | 5arm | 1 | nd | 0.42 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---GCCCUGC---------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S1 | |||
| --GGCCCTGCAAGTCCAGGCA----------------------------------------------------------------------------------- | 19 | 1 | |
| rat | taGGCCCTGCAAGTCCAGGCAtagactctgaagccggggatctactactccatctctggagtttcatttctccacgtcagagccttcaggtgccctttggcctg | ||
| ******************************************************************************************************** | |||
| rat | ((((((....(((....(((((((.((((((....(((((......((((((....))))))......)))))...)))))).))....)))))))).)))))) | 0.900 -37.50 |
| rat | chromosome:20:5527639:5527742:1 | intergenic |
block1669646 [novel_lenNOK_shortStem_randfoldOK_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 | 0.003 | no | no | 0.37/0.37 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 1 | 33 | 3arm | 1 | nd | 0.32 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------------UGUGCAA------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| --------------------------------------------------------------------------------------CTGTGCAATGTTTAAAGGT- | 19 | 1 | |
| rat | gctttccatctcatgcacataaggacatggatcactccagtcttaatggttagccatgggtactggtacttacccattgtcctaaaCTGTGCAATGTTTAAAGGTa | ||
| ********************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000009321 ENSRNOG00000007118 NP_001102713.1 | ||
| rat | (((((......((((((((..(((((((((......((((((((.((((....))))))).))))).......)))).)))))....)))))).))....))))). | 1.000 -33.12 |
| rat | chromosome:4:116320597:116320702:1 | Same_strand|Intronic_coding|ENSRNOT00000009321|ENSRNOG00000007118 ## ENSRNOG00000007118|protein_coding|NP_001102713.1|similar to CDNA sequence BC014699 (predicted) (RGD1559797_predicted), mRNA [Source:RefSeq_dna;Acc:NM_001109243] |
block839543 [novel_lenNOK_shortStem_randfoldOK_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 | 0.001 | no | no | 0.16/0.16 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 1 | 27 | 3arm | 1 | nd | 0.42 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------------AAAAGCC------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| --------------------------------------------------------------------------------------TAAAAGCCATTTTTAATTT- | 19 | 1 | |
| rat | gaggggaagagggtggggggagagggagagggaggaggagggggagagggaaagagatatctccaaactctgaccctcagttgaatTAAAAGCCATTTTTAATTTa | ||
| ********************************************************************************************************** | |||
| rat | (((..(((((.(((...((..((..(((.((..((((...(((((..............)))))...))))..)))))..))...))....))).)))))..))). | 0.520 -27.04 |
| rat | chromosome:1:42486389:42486494:-1 | intergenic ## {Repeats: AT_rich 14 24 -1 class=Low_complexity,AT_rich 1 24 -1 class=Low_complexity} |
block1723388 [novel_lenNOK_shortStem_randfoldOK_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 | 0.003 | no | no | 0.67/0.67 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 13 | 5arm | 1 | nd | 0.33 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----GAGAACC------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ----AGAGAACCCTTCCCCGGG-------------------------------------------------------- | 18 | 1 | |
| rat | actaAGAGAACCCTTCCCCGGGtgactctttgggttactatctggagggcacttctccccgggtcatggatctcatgg | ||
| ****************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061385 ENSRNOG00000014664 1110037F02Rik | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061384 ENSRNOG00000014664 1110037F02Rik | ||
| rat | .(((.((((.((....((((((.(((((((..(((....)))..)))))......))))))))....)).)))).))) | 1.000 -30.50 |
| rat | chromosome:5:25697015:25697092:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000020021|ENSRNOG00000014664 ## Same_strand|Intronic_coding|ENSRNOT00000061385|ENSRNOG00000014664 ## ENSRNOG00000014664|protein_coding|1110037F02Rik|RIKEN cDNA 1110037F02 gene Gene [Source:MGI Symbol;Acc:MGI:1913435] |
novel_lenNOK_multiarm_DicerNOK (767 loci)
sblock11834 [novel_lenNOK_multiarm_DicerNOK]
| 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 | 0.025 | no | no | 0.28/0.45 | 18/21/0.67 | 1.0 0.0 0.0 0.0 | 0.5 0.0 0.0 0.0 | 6 1 1 1 | 0 0 0 0 | 2 1 1 1 | 0 0 0 0 | 17 31 39 15 | 6 -5 -11 -1 | 5arm 5arm_loop_3arm 5arm_loop_3arm 3arm | 3 3 3 3 | nd nd nd nd | 0.37 0.40 0.39 0.20 | 4 5 5 2 | 9 | 2 | -5 | -6 |
| reads | miRBase family seed | |||
| seed | --------------------AUGAAUG---------------------------------------------------------- | 3 | novel | |
| seed | ----------------------GAAUGAA-------------------------------------------------------- | 2 | novel | |
| seed | ------------------GAAUGAA------------------------------------------------------------ | 1 | novel | |
| seed | ----------------------------------------AAUGAAA-------------------------------------- | 1 | novel | |
| seed | --------------------------------GUGUGUC---------------------------------------------- | 1 | novel | |
| seed | ---------------------------------------------------UUCAAGA--------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| -------------------AATGAATGAATGGGTGTGTCT--------------------------------------------- | 21 | 1 | 2 | |
| ---------------------TGAATGAATGGGTGTGTCT--------------------------------------------- | 19 | - | 2 | |
| -----------------TGAATGAATGAATGGGTGTG------------------------------------------------ | 20 | - | 1 | |
| ---------------------------------------TAATGAAAGCATTTCAAG---------------------------- | 18 | - | 1 | |
| --------------------------------------------------TTTCAAGACCTGCCCAATCT--------------- | 20 | - | 1 | |
| -------------------------------GGTGTGTCTAATGAAAGCAT---------------------------------- | 20 | - | 1 | |
| rat | atgaatgaatgtatgaaTGAATGAATGAATGGGTGTGTCTAATGAAAGCATTTCAAGACCTGCCCAATCTagtacccttcattta | |||
| ************************************************************************************* | ||||
| rat | .((((((((.((((............((.((((((.((((..((((.....)))))))).)))))).))..))))..)))))))) | 0.790 -20.14 | ||
| rat | chromosome:8:72083159:72083243:-1 | intergenic ## {Repeats: (TTCA)n 1 15 -1 class=Simple_repeat,dust 72083213 72083227 0 class=dust,trf 1 15 0 class=trf,(TTCA)n 1 38 -1 class=Simple_repeat} |
sblock10008 [novel_lenNOK_multiarm_DicerNOK]
| 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 | 0.297 | no | no | 0.56/0.63 | 18/25/0.00 | 0.5 0.0 | 3.0 0.0 | 2 1 | 0 0 | 1 1 | 0 0 | 0 8 | 28 24 | 5arm 3arm | 4 8 | nd nd | 0.20 0.26 | 2 2 | 3 | 2 | -1 | -9 |
| reads | miRBase family seed | |||
| seed | --ACACACU--------------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -GACACAC---------------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | ----------------------------------------------------------------------------------CCUAGGC------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S2 | T4S1 | |||
| -GACACACTGCCAACTGCA----------------------------------------------------------------------------------------- | 18 | - | 1 | |
| ---------------------------------------------------------------------------------GCCTAGGCCATGAGTTCCC-------- | 19 | 1 | - | |
| AGACACACTGCCAACTGCATGCAGG----------------------------------------------------------------------------------- | 25 | - | 1 | |
| rat | AGACACACTGCCAACTGCATGCAGGctttgattaccctgggatcctgctgcatagctgtgctgcgcaccctcaccaaacatGCCTAGGCCATGAGTTCCCagtcagtc | |||
| ************************************************************************************************************ | ||||
| rat | .(((..((((..((((.(((((((((..((........(((....(((.((((....)))).)))..)))........)).))))..)).)))))))..))))..))) | 0.870 -27.79 | ||
| rat | chromosome:6:76444370:76444477:-1 | intergenic |
sblock10009 [novel_lenNOK_multiarm_DicerNOK]
| 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 | 0.593 | no | no | 0.33/0.37 | 18/19/0.00 | 0.0 0.0 | 0.0 0.0 | 1 2 | 0 0 | 1 2 | 0 0 | 8 13 | 7 4 | 5arm 3arm | 1 1 | nd nd | 0.32 0.28 | 3 2 | 3 | 3 | -3 | -5 |
| reads | miRBase family seed | ||||
| seed | -------------------------------------------AAAGGUA----------------------- | 2 | novel | ||
| seed | ---------UCUUAAG--------------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T4S2 | T5S2 | |||
| ------------------------------------------CAAAGGTAGGTTATGATT------------- | 18 | - | 1 | 1 | |
| --------TTCTTAAGGATGACCTCTT---------------------------------------------- | 19 | 1 | - | - | |
| rat | ccttctgtTTCTTAAGGATGACCTCTTacaactttgtcgagtCAAAGGTAGGTTATGATTatatttgttatgg | ||||
| ************************************************************************* | |||||
| rat | ((..........(((..((((((((((...((((....))))...))).)))))))..)))..........)) | 0.750 -11.05 | |||
| rat | chromosome:6:78638450:78638522:-1 | intergenic |
sblock10028 [novel_lenNOK_multiarm_DicerNOK]
| 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 | 0.431 | no | no | 0.53/0.58 | 19/23/0.33 | 0.2 0.0 0.0 | 0.2 0.0 0.0 | 4 1 1 | 0 0 0 | 1 1 1 | 0 0 0 | 11 32 6 | 23 -1 11 | 5arm 5arm_loop 3arm | 2 2 2 | nd nd nd | 0.53 0.39 0.17 | 7 4 3 | 6 | 2 | -4 | 4 |
| reads | miRBase family seed | |||
| seed | ------------UCCCUUC------------------------------------------------------------------------------------ | 3 | novel | |
| seed | -------------CCCUUCC----------------------------------------------------------------------------------- | 1 | novel | |
| seed | ---------------------------------------------------------------------------GGCAUGG--------------------- | 1 | novel | |
| seed | ---------------------------------GAAGUCC--------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| -----------GTCCCTTCCACAGGAACCT------------------------------------------------------------------------- | 19 | - | 3 | |
| --------------------------------------------------------------------------TGGCATGGTCCTGTCCCACATGT------ | 23 | - | 1 | |
| --------------------------------TGAAGTCCATGGAGCTCGGTGGA------------------------------------------------ | 23 | 1 | - | |
| ------------TCCCTTCCACAGGAACCTT------------------------------------------------------------------------ | 19 | - | 1 | |
| rat | ctggaccatctGTCCCTTCCACAGGAACCTTaTGAAGTCCATGGAGCTCGGTGGAaatagaagcctctggtctaTGGCATGGTCCTGTCCCACATGTgcccag | |||
| ******************************************************************************************************* | ||||
| rat | ((((..(((.(((.......(((((.(((..(((....(((((((..((((.((.........)).))))))))))))))))))))))...))).))).)))) | 0.520 -27.30 | ||
| rat | chromosome:6:93609766:93609868:-1 | intergenic |
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