other hairpins
novel_lenNOK_mirtron_randfoldOK (50 loci)
block2287368 [novel_lenNOK_mirtron_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 | 0.002 | no | no | 0.67/0.67 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 6 | 10 | 3arm | 1 | 2 | 0.22 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------GGGCCCU---------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ---------------------------------------------------------TGGGCCCTTCTACCCTGC------ | 18 | 1 | |
| rat | taggtgtgggtcgaggagggtccagaagactgaaagggagctagaggagtccctctcTGGGCCCTTCTACCCTGCagctgg | ||
| ********************************************************************************* | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>> | ENSRNOT00000014987 ENSRNOG00000010652 Dock6 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>> | ENSRNOT00000049585 ENSRNOG00000010652 Dock6 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>> | ENSRNOT00000060860 ENSRNOG00000010652 Dock6 | ||
| rat | (((.((..((...((((((((((((.(((......((((.((.....)))))))))))))))))))))..))..)).))). | 0.430 -40.10 |
| rat | chromosome:8:20952430:20952510:-1 | Same_strand|Intronic_coding|ENSRNOT00000049585|ENSRNOG00000010652 ## Same_strand|Intronic_non-coding|ENSRNOT00000014987|ENSRNOG00000010652 ## ENSRNOG00000010652|protein_coding|Dock6|dedicator of cytokinesis 6 Gene [Source:MGI Symbol;Acc:MGI:1914789] |
block2315535 [novel_lenNOK_mirtron_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 | 0.003 | no | no | 0.58/0.60 | 19/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 15 10 | 14 18 | 3arm 3arm | 1 1 | 9 4 | 0.47 0.25 | 6 2 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------------------------------UAGGUGG---------------------- | 1 | novel | |
| seed | -----------------------------------------------------------------GACCUAG-------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S1 | |||
| ----------------------------------------------------------------TGACCTAGGTGGCATGCCT--------------- | 19 | 1 | - | |
| --------------------------------------------------------------------CTAGGTGGCATGCCTTGCCT---------- | 20 | - | 1 | |
| rat | cagcactgactgggtgggcaagagtgtggccctgctctaaggtaggctatctacctgagcagacTGACCTAGGTGGCATGCCTTGCCTtcagagctgc | |||
| ************************************************************************************************** | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>> | ENSRNOT00000049440 ENSRNOG00000030126 Clk3 | |||
| rat | ((((.((((......(((((((.((((.(((((((((..((((((.....)))))))))))).........))).))))..))))))))))).)))). | 0.850 -44.10 | ||
| rat | chromosome:8:61521841:61521938:-1 | Same_strand|Intronic_coding|ENSRNOT00000049440|ENSRNOG00000030126 ## ENSRNOG00000030126|protein_coding|Clk3|Dual specificity protein kinase CLK3 (EC 2.7.12.1) (CDC-like kinase 3). [Source:UniProtKB/Swiss-Prot;Acc:Q63117] |
block2538529 [novel_lenNOK_mirtron_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 | 0.006 | no | no | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 35 | 5 | 3arm | 1 | 0 | 0.22 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------GUAGCCG--------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| ----------------------------------------------------------AGTAGCCGTTTCCCACAG----------------------------------- | 18 | 1 | |
| rat | gtgcggacaggggctgcgggtggatgggcctgcgggaggctgcacgggccaggggctcAGTAGCCGTTTCCCACAGgcccggaagcccctggtggagaagaagcgacgcgc | ||
| *************************************************************************************************************** | |||
| >>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000027419 ENSRNOG00000020194 Hes6 | ||
| rat | (((((..((((((((.........((((((((.((((((((((..(((((...))))).))))))...)))).))))))))..))))))))...............))))) | 0.410 -59.93 |
| rat | chromosome:9:90641320:90641430:-1 | Same_strand|Intronic_coding|ENSRNOT00000027419|ENSRNOG00000020194 ## ENSRNOG00000020194|protein_coding|Hes6|hairy and enhancer of split 6 (Drosophila) (Hes6), mRNA [Source:RefSeq_dna;Acc:NM_001013179] ## {SimpF: oe = 0.69 -1 CpG} |
block2568482 [novel_lenNOK_mirtron_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 | 0.002 | no | no | 0.68/0.68 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 22 | 19 | 3arm | 1 | 3 | 0.11 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------CUGUGUC--------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S1 | |||
| -------------------------------------------------------------------------------CCTGTGTCCTGTGCTCCCG---------------------- | 19 | 1 | |
| rat | gagtccagaggagaagcaagagacaggaggctgcagggacaggcggacagcagaggtagaccctgctgacatggtgaccCCTGTGTCCTGTGCTCCCGtaggaataacctcctctggctg | ||
| ************************************************************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000026728 ENSRNOG00000019743 Tmem63b | ||
| rat | .((.(((((((((.........((.(((.((.(((((((((((.((.((((((.((....)))))))).........))))))).))))))))))).)).........))))))))))). | 0.450 -53.07 |
| rat | chromosome:9:10925440:10925559:1 | Same_strand|Intronic_coding|ENSRNOT00000026728|ENSRNOG00000019743 ## ENSRNOG00000019743|protein_coding|Tmem63b|transmembrane protein 63b Gene [Source:MGI (curated);Acc:Tmem63b-001] |
block2950758 [novel_lenNOK_mirtron_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 | 0.52/0.58 | 18/22/0.57 | 0.4 | 1.1 | 7 | 0 | 4 | 0 | 31 | 2 | 3arm | 1 | 1 | 0.11 | 1 | 7 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | -----------------------------------------------------------------UUGCCUU--------------------------------------------- | 4 | novel | |||
| seed | ------------------------------------------------------------------UGCCUUC-------------------------------------------- | 3 | novel | |||
| len | cloning frequencies | |||||
| T1S1 | T2S1 | T3S1 | T4S1 | |||
| ----------------------------------------------------------------CTTGCCTTCCACACCCTACAGA------------------------------- | 22 | 1 | - | 2 | - | |
| -----------------------------------------------------------------TTGCCTTCCACACCCTAC---------------------------------- | 18 | 1 | - | - | - | |
| -----------------------------------------------------------------TTGCCTTCCACACCCTACA--------------------------------- | 19 | - | - | - | 1 | |
| ----------------------------------------------------------------CTTGCCTTCCACACCCTAC---------------------------------- | 19 | - | - | - | 1 | |
| -----------------------------------------------------------------TTGCCTTCCACACCCTACAGA------------------------------- | 21 | - | 1 | - | - | |
| rat | agagtggtgagaaaggtccctgttgcgggaggtggggtgggggagggcaaccttacttctctgtCTTGCCTTCCACACCCTACAGAtcttccgaggccgggatgtgacgctgctcta | |||||
| ********************************************************************************************************************* | ||||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000006365 ENSRNOG00000004776 Ftsj1_predicted | |||||
| rat | ((((..(((......(((((.((..((((((((((((((..(((((((((....((......)).))))))))).))))))))....))))))..)).)))))....)))..)))). | 1.000 -58.70 | ||||
| rat | chromosome:X:26280109:26280225:1 | Same_strand|Boundary_coding|ENSRNOT00000006365|ENSRNOG00000004776 ## ENSRNOG00000004776|protein_coding|Ftsj1_predicted| |
block235158 [novel_lenNOK_mirtron_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 | 0.67/0.68 | 19/21/0.33 | 0.0 | 0.7 | 3 | 0 | 1 | 0 | 17 | 20 | 3arm | 1 | 1 | 0.05 | 1 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------GCUUCCC------------------------------ | 3 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -------------------------------------------------------------------------------CGCTTCCCTGCTTGTCCCG------------------- | 19 | 2 | |
| -------------------------------------------------------------------------------CGCTTCCCTGCTTGTCCCGCA----------------- | 21 | 1 | |
| rat | atggcttcggtccctgcgggtaagcacgggcgggcggcgggagggcggccaggccccgcggcctcggtgccgctcaccgCGCTTCCCTGCTTGTCCCGCAgaggccgagacccgcca | ||
| ********************************************************************************************************************* | |||
| .....>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000000898 ENSRNOG00000000708 NP_001099407.1 | ||
| .....>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000056824 ENSRNOG00000000708 NP_001099407.1 | ||
| rat | .(((((((((((.(((((((((((((.(((.((((.((((((((((.((((((((....))))).)))))).))).))))))))))))))))).))))))).)))))))....)))) | 1.000 -77.30 |
| rat | chromosome:12:44329839:44329955:1 | Same_strand|Intronic_coding|ENSRNOT00000000898|ENSRNOG00000000708 ## ENSRNOG00000000708|protein_coding|NP_001099407.1|RUN and TBC1 domain containing 2 [Source:RefSeq_peptide;Acc:NP_001099407] |
novel_lenNOK_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH (49 loci)
block2247785 [novel_lenNOK_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH]
| 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 | 0.252 | no | no | 0.35/0.48 | 19/25/0.26 | 0.0 1.7 0.0 | 0.0 2.7 1.3 | 12 7 3 | 0 0 0 | 1 1 1 | 0 0 0 | 21 25 10 | -6 -18 -2 | 5arm_loop 5arm_loop_3arm 3arm_loop | 1 1 1 | nd nd nd | 0.58 0.53 0.40 | 7 8 3 | 23 | 1 | 0 | 10 |
| reads | miRBase family seed | ||
| seed | ----------------------ACUCUAG---------------------------------------------- | 12 | novel |
| seed | ---------------------------AGGAGAG----------------------------------------- | 3 | novel |
| seed | -----------------------------------------ACUUAAC--------------------------- | 3 | novel |
| seed | ------------------------------AGAGCAA-------------------------------------- | 2 | novel |
| seed | --------------------------UAGGAGA------------------------------------------ | 1 | novel |
| seed | -------------------UAGACUC------------------------------------------------- | 1 | novel |
| seed | --------------------------------AGCAAGA------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ---------------------GACTCTAGGAGAGCAAGAA----------------------------------- | 19 | 12 | |
| --------------------------TAGGAGAGCAAGAATACTT------------------------------ | 19 | 3 | |
| -------------------------CTAGGAGAGCAAGAATACT------------------------------- | 19 | 1 | |
| ----------------------------------------TACTTAACTGAGGTAAAGGAGG------------- | 22 | 1 | |
| -----------------------------GAGAGCAAGAATACTTAACT-------------------------- | 20 | 1 | |
| ------------------TTAGACTCTAGGAGAGCAAGA------------------------------------ | 21 | 1 | |
| -------------------------------GAGCAAGAATACTTAACTGAG----------------------- | 21 | 1 | |
| ----------------------------------------TACTTAACTGAGGTAAAGGAGGGGG---------- | 25 | 1 | |
| ----------------------------------------TACTTAACTGAGGTAAAGGAGGG------------ | 23 | 1 | |
| -----------------------------GAGAGCAAGAATACTTAACTGAG----------------------- | 23 | 1 | |
| rat | tgattctggtctgtgtgcttaGACTCTAGGAGAGCAAGAAtacttaactgaggtaaaggagggggcccaagggtc | ||
| *************************************************************************** | |||
| rat | .(((((((((((.....(((..((..(((..(((........)))..)))..))..)))...)))))..)))))) | 0.710 -17.00 |
| rat | chromosome:7:112747178:112747252:1 | intergenic |
block958720 [novel_lenNOK_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH]
| 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 | 0.226 | no | no | 0.44/0.54 | 18/25/0.43 | 1.0 4.0 0.0 | 2.0 1.8 0.0 | 2 4 1 | 0 0 0 | 2 1 1 | 0 0 0 | 10 18 13 | -5 -20 -1 | 5arm_loop 5arm_loop_3arm 3arm | 2 2 27 | nd nd nd | 0.47 0.54 0.47 | 3 7 4 | 7 | 3 | 1 | 0 |
| reads | miRBase family seed | ||||
| seed | ------------------------ACCCUGG----------------------------------- | 2 | novel | ||
| seed | -------------------------CCCUGGU---------------------------------- | 1 | novel | ||
| seed | -----------CCCUGUG------------------------------------------------ | 1 | novel | ||
| seed | -----------------------------------GGCAUUA------------------------ | 1 | novel | ||
| seed | -------------CUGUGUA---------------------------------------------- | 1 | novel | ||
| seed | -------------------ACUAUAC---------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T3S2 | T4S2 | T5S1 | |||
| ----------------------------------TGGCATTAGCTCACAGTTG------------- | 19 | - | - | 1 | |
| ------------CCTGTGTACTATACCCTGGTC--------------------------------- | 21 | 1 | - | - | |
| ------------------TACTATACCCTGGTCATGGCATTAG----------------------- | 25 | - | - | 1 | |
| ----------TCCCTGTGTACTATACCCT------------------------------------- | 19 | - | 1 | - | |
| ------------------------ACCCTGGTCATGGCATTAGCTCAC------------------ | 24 | - | - | 1 | |
| -----------------------TACCCTGGTCATGGCATTAG----------------------- | 20 | - | - | 1 | |
| -----------------------TACCCTGGTCATGGCATT------------------------- | 18 | - | - | 1 | |
| rat | aggtttagatTCCCTGTGTACTATACCCTGGTCATGGCATTAGCTCACAGTTGcaattatttgcct | ||||
| ****************************************************************** | |||||
| rat | ((((...((((..(((((..(((...((.......))...)))..)))))....))))....)))) | 0.690 -12.70 | |||
| rat | chromosome:1:47746149:47746214:1 | intergenic |
block1060523 [novel_lenNOK_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH]
| 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 | 0.339 | no | no | 0.38/0.53 | 19/22/0.56 | 0.0 3.8 0.0 | 0.0 2.5 0.0 | 2 6 1 | 0 0 0 | 1 2 1 | 0 0 0 | 43 47 39 | -6 -18 -3 | 5arm_loop 5arm_loop_3arm 3arm_loop | 1 1 1 | nd nd nd | 0.63 0.67 0.47 | 7 9 3 | 9 | 3 | 0 | 2 |
| reads | miRBase family seed | ||||
| seed | -------------------------------------------------------GACGUAA---------------------------------------------------------- | 3 | novel | ||
| seed | ------------------------------------------------AAGCAAU----------------------------------------------------------------- | 2 | novel | ||
| seed | --------------------------------------------AGAGAAG--------------------------------------------------------------------- | 2 | novel | ||
| seed | --------------------------------------------------GCAAUGA--------------------------------------------------------------- | 1 | novel | ||
| seed | ---------------------------------------------------------------ACCAGUA-------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T1S2 | T5S1 | |||
| ------------------------------------------------------TGACGTAATACCAGTAGCAG---------------------------------------------- | 20 | 1 | - | 1 | |
| -------------------------------------------GAGAGAAGCAATGACGTAA---------------------------------------------------------- | 19 | - | - | 2 | |
| -----------------------------------------------GAAGCAATGACGTAATACCAGT--------------------------------------------------- | 22 | - | - | 2 | |
| --------------------------------------------------------------TACCAGTAGCAGCTGTCTG--------------------------------------- | 19 | - | 1 | - | |
| ------------------------------------------------------TGACGTAATACCAGTAGCA----------------------------------------------- | 19 | - | - | 1 | |
| -------------------------------------------------AGCAATGACGTAATACCAGTA-------------------------------------------------- | 21 | - | - | 1 | |
| rat | ttagcctggagatagtctggcgtggggcaggaggaggagagggGAGAGAAGCAATGACGTAATACCAGTAGCAGCTGTCTGtctgtccgtctgctgattgcaggggagtggcagaggctg | ||||
| ************************************************************************************************************************ | |||||
| rat | .((((((.....((.(((.(((...((((((....(((.((((((.((..((..((.........))...))..)).))).))).))).))))))...)))...))).))....)))))) | 0.940 -35.20 | |||
| rat | chromosome:20:5508062:5508181:-1 | intergenic |
sblock10283 [novel_lenNOK_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH]
| 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 | 0.969 | no | no | 0.48/0.84 | 18/22/0.43 | 1.3 3.3 0.0 | 2.0 2.7 0.0 | 3 3 1 | 0 0 0 | 2 2 1 | 0 0 0 | 16 19 5 | -8 -14 7 | 5arm_loop 3arm_loop 3arm | 1 1 1 | nd nd nd | 0.32 0.52 0.42 | 3 8 4 | 7 | 5 | 0 | 0 |
| reads | miRBase family seed | ||||||
| seed | ---------------------------------------UUCUCCU-------------------------------- | 2 | novel | ||||
| seed | ----------------------------------CAUUUUU------------------------------------- | 1 | novel | ||||
| seed | -----------------CGGAGCG------------------------------------------------------ | 1 | novel | ||||
| seed | -------------------------------------------------------CCGCGCC---------------- | 1 | novel | ||||
| seed | ------------------GGAGCGC----------------------------------------------------- | 1 | novel | ||||
| seed | --------------------AGCGCAG--------------------------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T2S1 | T2S2 | T3S1 | T3S2 | |||
| ---------------------------------CCATTTTTCTCCTTGCTCGCA------------------------ | 21 | - | - | 1 | - | - | |
| ------------------------------------------------------GCCGCGCCGGGCAGCTCGT----- | 19 | - | - | - | 1 | - | |
| -------------------GAGCGCAGCGAAGCCCATTTTT------------------------------------- | 22 | - | - | - | - | 1 | |
| ----------------ACGGAGCGCAGCGAAGCCC------------------------------------------- | 19 | 1 | - | - | - | - | |
| --------------------------------------TTTCTCCTTGCTCGCAGCC--------------------- | 19 | - | 1 | - | - | - | |
| --------------------------------------TTTCTCCTTGCTCGCAGCCGC------------------- | 21 | - | 1 | - | - | - | |
| -----------------CGGAGCGCAGCGAAGCCC------------------------------------------- | 18 | 1 | - | - | - | - | |
| rat | agcggtgacttaagcaACGGAGCGCAGCGAAGCCCATTTTTCTCCTTGCTCGCAGCCGCGCCGGGCAGCTCGTggcgc | ||||||
| ****************************************************************************** | |||||||
| rat | .((.((.((...(((..(((.((((.(((.(((..............)))))).)).)).)))....))).)).)))) | 0.520 -21.44 | |||||
| rat | chromosome:6:51129087:51129164:1 | intergenic ## {SimpF: 1 Eponine} |
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