other hairpins
novel_mirtron_randfoldOK_nonpairedHIGH (8 loci)
block1436039 [novel_mirtron_randfoldOK_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 | 0.009 | no | no | 0.52/0.52 | 23/23/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 13 | 15 | 3arm | 1 | 1 | 0.35 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------CAACUGC---------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S1 | |||
| -------------------------------------------------------------------TCAACTGCCTGACTCTCTCCACA------------- | 23 | 1 | |
| rat | agccattggggacaggtgggggacgggcttgtgagacagcagcaggatggggccgctgcaatggcccTCAACTGCCTGACTCTCTCCACAgggtttccaaggc | ||
| ******************************************************************************************************* | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>> | ENSRNOT00000012334 ENSRNOG00000008749 Col5a1 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>> | ENSRNOT00000047573 ENSRNOG00000008749 Col5a1 | ||
| rat | .(((.((((..((..(((((((((((((...((((.(((((((.((......)))))))..))...))))...)))))..)))).))))...))..))))))) | 0.820 -48.80 |
| rat | chromosome:3:6937256:6937358:1 | Same_strand|Intronic_coding|ENSRNOT00000047573|ENSRNOG00000008749 ## ENSRNOG00000008749|protein_coding|Col5a1|Collagen alpha-1(V) chain precursor. [Source:UniProtKB/Swiss-Prot;Acc:Q9JI03] |
block1837937 [novel_mirtron_randfoldOK_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 | 0.002 | no | no | 0.70/0.70 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 16 | 19 | 3arm | 1 | 0 | 0.35 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------UCUCCCU---------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| ----------------------------------------------------------------------------------CTCTCCCTGCCTGCTCCCAG---------------- | 20 | 1 | |
| rat | gcattgtagaagtggaaactggggctcctcagggctacctctaacctgcagtctgcatttccaaatgtctgctggtttacatCTCTCCCTGCCTGCTCCCAGttttcagtaagcttgc | ||
| ********************************************************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000021888 ENSRNOG00000016309 RGD1311757_predicted | ||
| rat | (((..((.....(((((((((((((....(((((........((((.((((...(((((....))))))))).)))).........)))))...)).)))))))))))....)).))) | 0.990 -40.73 |
| rat | chromosome:5:60060046:60060163:1 | Same_strand|Intronic_coding|ENSRNOT00000021888|ENSRNOG00000016309 ## ENSRNOG00000016309|protein_coding|RGD1311757_predicted| |
block1919522 [novel_mirtron_randfoldOK_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 | 0.001 | no | no | 0.36/0.41 | 22/22/1.00 | 1.0 | 1.0 | 2 | 0 | 2 | 0 | 26 | 10 | 3arm | 1 | 2 | 0.32 | 3 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------GUUUCUA------------------------------------------ | 1 | novel | |
| seed | -------------------------------------------------------------------UUCUAAG---------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S2 | |||
| ----------------------------------------------------------------GGTTTCTAAGTCTCCATCTCAT---------------------------- | 22 | 1 | - | |
| ------------------------------------------------------------------TTTCTAAGTCTCCATCTCATAC-------------------------- | 22 | - | 1 | |
| rat | gagtggggccagtgtgctgaagagaaggggaaggagatttgtgaagctgatgggtcagacttcaGGTTTCTAAGTCTCCATCTCATACagggaggaagcagaggcccaaagctc | |||
| ****************************************************************************************************************** | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000006658 ENSRNOG00000039815 RGD1561526_predicted | |||
| rat | ((((.(((((..(((.(((..((((.(((((.(((((((..(((((((((....)))).))))))))))))...))))).))))...))).......)))..)))))...)))) | 0.940 -44.70 | ||
| rat | chromosome:6:25052380:25052493:-1 | Same_strand|Intronic_coding|ENSRNOT00000006658|ENSRNOG00000039815 ## ENSRNOG00000039815|protein_coding|RGD1561526_predicted| |
block2577754 [novel_mirtron_randfoldOK_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 | 0.009 | no | no | 0.38/0.38 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 16 | 12 | 5arm | 1 | 4 | 0.43 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------GUUACUG---------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| ----------------AGTTACTGTCTCCTTTTTCTC--------------------------------------------------------------------- | 21 | 1 | |
| rat | ttgctaaagctaagatAGTTACTGTCTCCTTTTTCTCctaggactgggctaatgccaatgtcactgtacagattgagaacacagttctgtatggctactatagtaa | ||
| ********************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++ | ENSRNOT00000016887 ENSRNOG00000012178 Lmbrd1 | ||
| rat | .(((((.(((((..((((..(((((...(((..(((..((((((..(((....)))...))).)))...)))..)))...))))).)))).)))))....))))). | 0.990 -29.80 |
| rat | chromosome:9:23444698:23444803:1 | Same_strand|Intronic_coding|ENSRNOT00000016887|ENSRNOG00000012178 ## ENSRNOG00000012178|protein_coding|Lmbrd1|LMBR1 domain-containing protein 1 (Liver regeneration p53-related protein). [Source:UniProtKB/Swiss-Prot;Acc:Q6AZ61] |
novel_multiarm_DicerNOK_5varHIGH_loopOverlap_nonpairedHIGH (8 loci)
block1804716 [novel_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 | 0.796 | no | no | 0.50/0.65 | 18/24/0.75 | 0.2 0.0 2.5 | 3.5 2.0 1.5 | 4 2 2 | 0 0 0 | 2 1 2 | 0 0 0 | 11 23 16 | -4 -14 -4 | 5arm_loop_3arm 5arm_loop_3arm 3arm | 6 6 6 | nd nd nd | 0.33 0.48 0.50 | 2 4 4 | 8 | 5 | 2 | -3 |
| reads | miRBase family seed | ||||||
| seed | ------------UCUUUCU------------------------------------------------------ | 3 | novel | ||||
| seed | ------------------------GGCACUC------------------------------------------ | 2 | novel | ||||
| seed | ---------------------------------UAAGGAC--------------------------------- | 1 | novel | ||||
| seed | --------------------------------------ACGAAGC---------------------------- | 1 | novel | ||||
| seed | -------------CUUUCUA----------------------------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T3S1 | T3S2 | T5S1 | T5S2 | |||
| --------------------------------GTAAGGACGAAGCCATGTTCAG------------------- | 22 | - | - | 1 | - | - | |
| -----------CTCTTTCTAAGCCGGCAC-------------------------------------------- | 18 | - | 1 | - | - | - | |
| -----------------------CGGCACTCCGTAAGGACGA------------------------------- | 19 | 1 | - | - | - | - | |
| ------------TCTTTCTAAGCCGGCACTCCGTAA------------------------------------- | 24 | - | 1 | - | - | - | |
| -----------------------CGGCACTCCGTAAGGACGAAGCC--------------------------- | 23 | 1 | - | - | - | - | |
| -------------------------------------GACGAAGCCATGTTCAGCTC---------------- | 20 | - | - | - | - | 1 | |
| -----------CTCTTTCTAAGCCGGCACTCCG---------------------------------------- | 22 | - | 1 | - | - | - | |
| -----------CTCTTTCTAAGCCGGCACTCC----------------------------------------- | 21 | - | - | - | 1 | - | |
| rat | gcaaaggatggCTCTTTCTAAGCCGGCACTCCGTAAGGACGAAGCCATGTTCAGCTCgagcgccaagattgtg | ||||||
| ************************************************************************* | |||||||
| ...................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000011545 ENSRNOG00000027694 RS7_RAT | ||||||
| rat | ((((....((((.(((.((.(((.(((..(((....)))....)))..))).))...))).))))...)))). | 0.730 -19.00 | |||||
| rat | chromosome:5:169076873:169076945:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000011545|ENSRNOG00000027694 ## ENSRNOG00000027694|protein_coding|RS7_RAT|40S ribosomal protein S7 (S8). [Source:UniProtKB/Swiss-Prot;Acc:P62083] |
block2324884 [novel_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 | 0.230 | no | no | 0.43/0.57 | 20/23/1.00 | 2.5 0.0 0.0 | 2.5 0.0 0.0 | 4 4 1 | 0 0 0 | 1 2 1 | 0 0 0 | 29 44 34 | -8 -16 -6 | 5arm_loop_3arm 5arm_loop_3arm 3arm_loop | 1 1 1 | nd nd nd | 0.33 0.43 0.43 | 3 8 5 | 9 | 2 | 0 | -5 |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------ACCUCUU-------------------------------------------------------- | 4 | novel | |
| seed | ------------------------------AGAUCUG----------------------------------------------------------------------- | 2 | novel | |
| seed | ----------------------------------CUGAGUU------------------------------------------------------------------- | 1 | novel | |
| seed | ------------------------------------GAGUUCU----------------------------------------------------------------- | 1 | novel | |
| seed | ----------------------------------------------------GCCCUAG------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T5S1 | |||
| --------------------------------------------TACCTCTTGCCCTAGGTGGAG------------------------------------------- | 21 | 1 | 3 | |
| -----------------------------TAGATCTGAGTTCTCTACCTC---------------------------------------------------------- | 21 | - | 2 | |
| ---------------------------------------------------TGCCCTAGGTGGAGCATAACAAA---------------------------------- | 23 | - | 1 | |
| ---------------------------------TCTGAGTTCTCTACCTCTTG------------------------------------------------------- | 20 | - | 1 | |
| -----------------------------------TGAGTTCTCTACCTCTTGCCCT--------------------------------------------------- | 22 | - | 1 | |
| rat | ggaaggctacctcctctggctcagaagggTAGATCTGAGTTCTCTACCTCTTGCCCTAGGTGGAGCATAACAAAgtgaagtaccctaaagattagaataatgtcctcc | |||
| ************************************************************************************************************ | ||||
| rat | (((.(((.......(((((.((...((((((...((..(((((((((((........))))))))...)))..)).....))))))...))))))).....))).))) | 0.420 -27.20 | ||
| rat | chromosome:8:72064178:72064285:-1 | intergenic |
sblock2336 [novel_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 | 0.399 | no | no | 0.35/0.61 | 20/24/1.00 | 3.5 0.0 0.0 | 2.0 0.0 0.0 | 2 1 1 | 0 0 0 | 1 1 1 | 0 0 0 | 12 38 11 | 5 -13 7 | 5arm 5arm_loop_3arm 3arm | 1 1 1 | nd nd nd | 0.38 0.55 0.43 | 3 6 8 | 4 | 3 | 3 | 8 |
| reads | miRBase family seed | ||||
| seed | --------------------CGAAGAG----------------------------------------------------------------- | 1 | novel | ||
| seed | -------------AAAGCCA------------------------------------------------------------------------ | 1 | miR-742 | ||
| seed | ---------------------------------------UUAAGAA---------------------------------------------- | 1 | novel | ||
| seed | -----------------------------------------------------------UUCCUCU-------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T4S1 | T5S1 | T5S2 | |||
| --------------------------------------CTTAAGAACTTGATCTGTGA---------------------------------- | 20 | - | - | 1 | |
| -------------------ACGAAGAGAGTGAAACAATCT---------------------------------------------------- | 21 | - | 1 | - | |
| ----------------------------------------------------------TTTCCTCTCCCTCCCCTTCCCCT----------- | 23 | 1 | - | - | |
| ------------GAAAGCCACGAAGAGAGTGAAACA-------------------------------------------------------- | 24 | - | 1 | - | |
| rat | caccaagaaacaGAAAGCCACGAAGAGAGTGAAACAATCTTAAGAACTTGATCTGTGATTTCCTCTCCCTCCCCTTCCCCTgcaaatatggt | ||||
| ******************************************************************************************** | |||||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................. | ENSRNOT00000049942 ENSRNOG00000003343 Canx | ||||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................. | ENSRNOT00000041770 ENSRNOG00000003343 Canx | ||||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................. | ENSRNOT00000004511 ENSRNOG00000003343 Canx | ||||
| rat | .((((.....(((........((.(((((.((...((((...(((......)))..)))))))))))..))........)))......)))) | 0.990 -13.99 | |||
| rat | chromosome:10:35853991:35854082:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000041770|ENSRNOG00000003343 ## intergenic ## ENSRNOG00000003343|protein_coding|Canx|Calnexin precursor. [Source:UniProtKB/Swiss-Prot;Acc:P35565] |
sblock37 [novel_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 | 0.466 | no | no | 0.35/0.53 | 19/23/0.75 | 0.0 1.8 0.0 0.0 | 0.0 1.0 0.0 0.0 | 2 4 1 1 | 0 0 0 0 | 1 1 1 1 | 0 0 0 0 | 0 18 30 4 | 13 -13 -18 2 | 5arm 5arm_loop_3arm 5arm_loop_3arm 3arm | 1 1 1 1 | nd nd nd nd | 0.37 0.52 0.55 0.35 | 4 7 7 3 | 8 | 1 | -10 | -2 |
| reads | miRBase family seed | ||
| seed | -------------------GAAUCCU------------------------------------------ | 3 | novel |
| seed | -CCAUACU------------------------------------------------------------ | 2 | novel |
| seed | ------------------------------------------AGUAGCC------------------- | 1 | novel |
| seed | --------------------------GGAAUGA----------------------------------- | 1 | novel |
| seed | -------------------------------GAAGAAC------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ------------------TGAATCCTGGAATGAAGAACACA--------------------------- | 23 | 3 | |
| TCCATACTGGAAAGGCCCT------------------------------------------------- | 19 | 2 | |
| ------------------------------TGAAGAACACATAGTAGCCT------------------ | 20 | 1 | |
| -----------------------------------------TAGTAGCCTCAGGTTCCCACATG---- | 23 | 1 | |
| -------------------------TGGAATGAAGAACACATAGT----------------------- | 20 | 1 | |
| rat | TCCATACTGGAAAGGCCCTGAATCCTGGAATGAAGAACACATAGTAGCCTCAGGTTCCCACATGtgaa | ||
| ******************************************************************** | |||
| ------------------------------------------------------------------------------ | ENSRNOT00000044049 ENSRNOG00000040148 | ||
| rat | (((((...((((....(((((...(((..(((.......)))..)))..)))))))))...))).)). | 0.690 -11.50 |
| rat | chromosome:1:13907541:13907608:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000044049|ENSRNOG00000040148 ## ENSRNOG00000040148|protein_coding|| |
sblock4396 [novel_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 | 0.756 | no | no | 0.29/0.43 | 21/25/0.71 | 1.0 2.5 | 1.6 2.0 | 5 2 | 0 0 | 1 1 | 0 0 | 8 4 | -5 0 | 5arm_loop 3arm | 1 1 | nd nd | 0.32 0.36 | 3 4 | 7 | 1 | 4 | 0 |
| reads | miRBase family seed | ||
| seed | ----------CUGUAGG--------------------------------------------------- | 3 | novel |
| seed | --------------AGGAAUU----------------------------------------------- | 1 | novel |
| seed | --------------------------------------------AGACACU----------------- | 1 | novel |
| seed | ---------GCUGUAG---------------------------------------------------- | 1 | novel |
| seed | ---------------------------------------UGAAGAG---------------------- | 1 | miR-300 |
| len | cloning frequencies | ||
| T5S1 | |||
| ---------GCTGTAGGAATTTTCTTTGACT------------------------------------- | 22 | 2 | |
| --------------------------------------TTGAAGAGACACTGAACAGACT-------- | 22 | 1 | |
| ---------GCTGTAGGAATTTTCTTTGACTTCA---------------------------------- | 25 | 1 | |
| -------------TAGGAATTTTCTTTGACTTCA---------------------------------- | 21 | 1 | |
| -------------------------------------------GAGACACTGAACAGACTAACT---- | 21 | 1 | |
| --------TGCTGTAGGAATTTTCTTTGACTTC----------------------------------- | 25 | 1 | |
| rat | gtctttgaTGCTGTAGGAATTTTCTTTGACTTCAtaaaTTGAAGAGACACTGAACAGACTAACTtggc | ||
| ******************************************************************** | |||
| rat | (((.......((((.((...(((((((((.........)))))))))..))..))))........))) | 0.580 -8.66 |
| rat | chromosome:15:253948:254015:-1 | intergenic |
sblock8052 [novel_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 | 0.447 | no | no | 0.55/0.61 | 19/23/0.83 | 0.0 0.0 0.0 1.5 | 0.0 0.0 0.0 3.0 | 2 1 1 2 | 0 0 0 0 | 1 1 1 1 | 0 0 0 0 | 9 14 20 9 | -1 -7 -11 0 | 5arm_loop 5arm_loop_3arm 5arm_loop_3arm 3arm | 1 1 1 1 | nd nd nd nd | 0.35 0.43 0.47 0.43 | 2 4 4 4 | 6 | 2 | 1 | -4 |
| reads | miRBase family seed | |||
| seed | ----------GCCCUCU-------------------------------------------------- | 2 | novel | |
| seed | ---------------------GACCUCA--------------------------------------- | 1 | novel | |
| seed | ------------------------------------GACCAGG------------------------ | 1 | novel | |
| seed | ---------------------------------GAAGACC--------------------------- | 1 | novel | |
| seed | ---------------CUACCUG--------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T5S1 | |||
| ---------TGCCCTCTACCTGACCTCAC-------------------------------------- | 20 | - | 2 | |
| --------------------TGACCTCACCGCTGAAGAC---------------------------- | 19 | 1 | - | |
| -----------------------------------AGACCAGGGTCTGACTGGGAAGG--------- | 23 | - | 1 | |
| --------------TCTACCTGACCTCACCGCTGA-------------------------------- | 21 | - | 1 | |
| --------------------------------TGAAGACCAGGGTCTGACTG--------------- | 20 | - | 1 | |
| rat | catctccccTGCCCTCTACCTGACCTCACCGCTGAAGACCAGGGTCTGACTGGGAAGGaggctatgc | |||
| ******************************************************************* | ||||
| rat | (((..(((((.(((((..((((..((((....)).))..))))....))..))).))).))..))). | 0.950 -17.60 | ||
| rat | chromosome:3:76967732:76967798:1 | intergenic |
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