other hairpins
novel_lenNOK_mirtron_randfoldOK_nonpairedHIGH (11 loci)
block957269 [novel_lenNOK_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 | 0.32/0.32 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 9 | 17 | 3arm | 1 | 3 | 0.37 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------------------UUCCCUU-------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ------------------------------------------------------------------ATTCCCTTCCTTTTATCTT--------- | 19 | 1 | |
| rat | catatgtgttggtggtagtgaggagattggtattagcatcaaatcttcattgatgactaatgtttaATTCCCTTCCTTTTATCTTtaggtatgg | ||
| ********************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000023304 ENSRNOG00000017174 LOC499022 | ||
| ++++++++++++++++++++++++++++++>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>> | ENSRNOT00000023290 ENSRNOG00000017174 LOC499022 | ||
| rat | (((((.((..(((((.((..(((..(((((((((((((((((.......)))))).)))))))).)))..)))..)).)))))..)).))))). | 1.000 -28.00 |
| rat | chromosome:1:45026305:45026398:1 | Same_strand|Intronic_coding|ENSRNOT00000023290|ENSRNOG00000017174 ## Same_strand|Boundary_non-coding|ENSRNOT00000035402|ENSRNOG00000017174 ## ENSRNOG00000017174|protein_coding|LOC499022|Protein quaking (RqkI). [Source:UniProtKB/Swiss-Prot;Acc:Q91XU1] |
block1008890 [novel_lenNOK_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 | 0.008 | no | no | 0.67/0.67 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 27 | 14 | 3arm | 1 | 2 | 0.39 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------GAGGGCU------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| -------------------------------------------------------------------------TGAGGGCTGCTGCCACCA--------------------------- | 18 | 1 | |
| rat | cagtcagtgatccaggggtcaacaaggagcgtaccagccttcctggagcacaccaacgtggccctgtaccaggTGAGGGCTGCTGCCACCAcacaccaggcctggaattggctgactg | ||
| ********************************************************************************************************************** | |||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000052015 ENSRNOG00000015058 | ||
| rat | ((((((((..(((((((((......((...(((.((((((.(((((.(((..((.....))...))).)))))...)))))).)))..))....)))...))))))....)))))))) | 0.870 -46.90 |
| rat | chromosome:1:155726514:155726631:1 | Same_strand|Intronic_coding|ENSRNOT00000052015|ENSRNOG00000015058 ## Same_strand|Boundary_non-coding|ENSRNOT00000020513|ENSRNOG00000015058 ## ENSRNOG00000015058|protein_coding|| |
block2152254 [novel_lenNOK_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 | 0.007 | no | no | 0.47/0.53 | 19/22/0.33 | 0.5 0.0 | 0.5 0.0 | 2 1 | 0 0 | 2 1 | 0 0 | 14 20 | 8 0 | 5arm 5arm | 2 2 | 7 1 | 0.47 0.32 | 6 2 | 3 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ----------------CUCACAG----------------------------------------------------------------------- | 1 | novel | ||
| seed | ---------------CCUCACA------------------------------------------------------------------------ | 1 | novel | ||
| seed | ---------------------AGCAAGA------------------------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S1 | T2S2 | T3S1 | |||
| --------------GCCTCACAGCAAGACTTCT------------------------------------------------------------- | 19 | - | 1 | - | |
| --------------------CAGCAAGACTTCTTTCCCTAGC---------------------------------------------------- | 22 | - | - | 1 | |
| ---------------CCTCACAGCAAGACTTCTT------------------------------------------------------------ | 19 | 1 | - | - | |
| rat | ggtcttcagtctcaGCCTCACAGCAAGACTTCTTTCCCTAGCtcctagctgaggagaagaccatctcagccaagtatgctgaggagcgagaccg | ||||
| ********************************************************************************************** | |||||
| ++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000007398 ENSRNOG00000004860 Myh9 | ||||
| rat | ((((((...(((((((......((.(((..((((..((((((.....))).)))..))))...)))..)).......)))))))...)))))). | 0.630 -33.22 | |||
| rat | chromosome:7:115686980:115687073:-1 | Same_strand|Boundary_coding|ENSRNOT00000007398|ENSRNOG00000004860 ## ENSRNOG00000004860|protein_coding|Myh9|Myosin-9 (Myosin heavy chain 9) (Myosin heavy chain, non-muscle IIa) (Non-muscle myosin heavy chain IIa) (NMMHC II-a) (NMMHC-IIA) (Cellular myosin heavy chain, type A) (Non-muscle myosin heavy chain-A) (NMMHC- A). [Source:UniProtKB/Swiss-Prot;Acc:Q62812] |
block2622353 [novel_lenNOK_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 | 0.008 | no | no | 0.42/0.42 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 32 | 2 | 5arm | 1 | 4 | 0.32 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------UCACUGU------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| --------------------------------GTCACTGTCTGTTTTCTTC------------------------------------------------------- | 19 | 1 | |
| rat | ctgcaccatgtactctctcttcctggcatcagGTCACTGTCTGTTTTCTTCctagtgacaaaaggctgatcgcagagggacctggggaaactgtacttgttgcaga | ||
| ********************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000020420 ENSRNOG00000015231 Mrpl44 | ||
| rat | (((((.((.((((......(((((.....((((((.((.(((((..((..(((.........)))..))..))))))))))))))))))...)))).)).))))). | 0.960 -36.20 |
| rat | chromosome:9:79078017:79078122:1 | Same_strand|Intronic_coding|ENSRNOT00000020420|ENSRNOG00000015231 ## ENSRNOG00000015231|protein_coding|Mrpl44|mitochondrial ribosomal protein L44 [Source:RefSeq_peptide;Acc:NP_001026820] |
novel_lenNOK_multiarm_DicerNOK_randfoldOK_bulgeHIGH (11 loci)
sblock10960 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.010 | no | no | 0.42/0.60 | 19/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 10 18 | 12 1 | 5arm 3arm | 1 1 | nd nd | 0.32 0.30 | 3 4 | 2 | 1 | -10 | -13 |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------UGUCUGU------------------------------ | 1 | novel |
| seed | -----------UUGGUUU--------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ----------TTTGGTTTGGTTTTTCCGG---------------------------------------------------------- | 19 | 1 | |
| -------------------------------------------------CTGTCTGTCCCCATCAGGAC------------------ | 20 | 1 | |
| rat | aaaaaatgctTTTGGTTTGGTTTTTCCGGggactgatgtgctttaatcgCTGTCTGTCCCCATCAGGACgcctagcttagctctttt | ||
| *************************************************************************************** | |||
| rat | .((((..(((...((((.(((...(((((((((.((((.((.......)))))).))))))....))).))).)))).)))..)))) | 1.000 -27.00 |
| rat | chromosome:7:115139522:115139608:-1 | intergenic ## {Repeats: dust 115139583 115139599 0 class=dust} |
sblock12244 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.63/0.74 | 19/21/0.50 | 0.0 0.0 | 0.0 0.7 | 1 3 | 0 0 | 1 2 | 0 0 | 8 7 | 7 5 | 5arm 3arm | 1 1 | nd nd | 0.26 0.26 | 3 4 | 4 | 3 | -1 | 0 |
| reads | miRBase family seed | ||||
| seed | ---------------------------------------------GCCCCUU-------------------- | 3 | novel | ||
| seed | ---------UGGGCUC-------------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T3S1 | T3S2 | T4S2 | |||
| --------------------------------------------CGCCCCTTTCTCCGAGCCCAT------- | 21 | - | - | 2 | |
| --------------------------------------------CGCCCCTTTCTCCGAGCCC--------- | 19 | 1 | - | - | |
| --------CTGGGCTCTGAGATTCGGC--------------------------------------------- | 19 | - | 1 | - | |
| rat | cagaaacaCTGGGCTCTGAGATTCGGCtacagggaatccccctgCGCCCCTTTCTCCGAGCCCATaatctct | ||||
| ************************************************************************ | |||||
| ---------------------------------------------------------------------------------- | ENSRNOT00000024733 ENSRNOG00000018185 Sag | ||||
| rat | .(((.....(((((((.((((...(((..(((((.....))))).)))....)))).))))))).....))) | 1.000 -31.70 | |||
| rat | chromosome:9:86782108:86782179:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000024733|ENSRNOG00000018185 ## ENSRNOG00000018185|protein_coding|Sag|S-arrestin (Retinal S-antigen) (48 kDa protein) (S-AG) (Rod photoreceptor arrestin). [Source:UniProtKB/Swiss-Prot;Acc:P15887] |
sblock2376 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.61/0.61 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 16 24 | 16 16 | 5arm 3arm | 1 1 | nd nd | 0.28 0.44 | 4 5 | 2 | 2 | -1 | 0 |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------------UUGGCAA---------------------------------- | 1 | miR-182 | |
| seed | -----------------CAUUCCC---------------------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T4S2 | |||
| ----------------GCATTCCCCCTGCGGTTA------------------------------------------------------------------------------ | 18 | - | 1 | |
| ----------------------------------------------------------------------CTTGGCAAGGGGAAGGTC------------------------ | 18 | 1 | - | |
| rat | ggagtgtggctcacttGCATTCCCCCTGCGGTTAggagtttctgtctggatggctcttgacagtaactcaCTTGGCAAGGGGAAGGTCcttgcaagcagaaccagctactct | |||
| **************************************************************************************************************** | ||||
| -------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000057798 ENSRNOG00000002903 RGD1309718 | |||
| rat | (((((((((.((.((((((((((((.(((....(((((((.(((((.(((....))).))))).))))).))..))).))))))......))))))..)).)))..)))))) | 0.990 -44.90 | ||
| rat | chromosome:10:48169344:48169455:-1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000003896|ENSRNOG00000002903 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000057798|ENSRNOG00000002903 ## ENSRNOG00000002903|protein_coding|RGD1309718|similar to sperm antigen HCMOGT-1 (RGD1309718), mRNA [Source:RefSeq_dna;Acc:NM_001039017] |
sblock3057 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.008 | no | no | 0.44/0.58 | 18/20/0.33 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 1 1 1 | 0 0 0 | 1 1 1 | 0 0 0 | 4 9 4 | 31 23 26 | 5arm 3arm 3arm | 7 9 9 | nd nd nd | 0.37 0.44 0.30 | 4 7 4 | 3 | 3 | 0 | -8 |
| reads | miRBase family seed | ||||
| seed | ----------------------------------------------------------------------------------CAAUGAU------------------- | 1 | novel | ||
| seed | -----UGGCCUC------------------------------------------------------------------------------------------------ | 1 | novel | ||
| seed | -------------------------------------------------------------------------------------UGAUGCU---------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T4S1 | T5S2 | |||
| ----CTGGCCTCTGACAGGCAAT------------------------------------------------------------------------------------- | 19 | - | - | 1 | |
| ------------------------------------------------------------------------------------ATGATGCTGCCTTTCACCAC---- | 20 | - | 1 | - | |
| ---------------------------------------------------------------------------------TCAATGATGCTGCCTTTC--------- | 18 | 1 | - | - | |
| rat | ttcaCTGGCCTCTGACAGGCAATgctaaactccaggacggaactattcctgacaatgctgtcttaattagaattccctccaTCAATGATGCTGCCTTTCACCACtgaa | ||||
| ************************************************************************************************************ | |||||
| rat | .(((.(((....(((.(((((..((.........(((.(((((((.....((((....)))).....)))..)))).))).........))))))).)))))).))). | 0.950 -27.07 | |||
| rat | chromosome:11:86433625:86433732:-1 | intergenic |
sblock4371 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.37/0.52 | 19/23/0.33 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 1 1 1 | 0 0 0 | 1 1 1 | 0 0 0 | 11 21 23 | 13 3 3 | 5arm 5arm 3arm | 1 1 1 | nd nd nd | 0.26 0.21 0.35 | 5 4 4 | 3 | 1 | 0 | -1 |
| reads | miRBase family seed | ||
| seed | ------------GGAAUGU------------------------------------------------------------------------------ | 1 | miR-1/206 |
| seed | ----------------------GUGUUUC-------------------------------------------------------------------- | 1 | novel |
| seed | ----------------------------------------------------GGACAGU-------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -----------TGGAATGTCTTGTGTTTCT------------------------------------------------------------------- | 19 | 1 | |
| ---------------------------------------------------AGGACAGTAGAGCTATGAGGCAC----------------------- | 23 | 1 | |
| ---------------------TGTGTTTCTTCTCTGGATG--------------------------------------------------------- | 19 | 1 | |
| rat | gctggaagaacTGGAATGTCTTGTGTTTCTTCTCTGGATGgccaggatggcAGGACAGTAGAGCTATGAGGCACaaggaaaaagaacagttccatgc | ||
| ************************************************************************************************* | |||
| rat | ((((((...((((.....((((((((((((((((((....(((.....)))....))).))))....)))))))))))........)))))))).)) | 0.990 -32.42 |
| rat | chromosome:15:235164:235260:-1 | intergenic |
sblock5013 [novel_lenNOK_multiarm_DicerNOK_randfoldOK_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 | 0.37/0.58 | 19/25/0.00 | 0.0 1.0 | 0.0 4.0 | 3 2 | 0 0 | 1 1 | 0 0 | 15 0 | 3 25 | 5arm 3arm | 4 4 | nd nd | 0.21 0.53 | 4 10 | 5 | 1 | 0 | -21 |
| reads | miRBase family seed | ||
| seed | ----------------CCCUGCU------------------------------------------------------------------------- | 3 | novel |
| seed | ------------------------------------------------------------------------CCUGCAC----------------- | 1 | novel |
| seed | ----------------------------------------------------------------------CUCCUGC------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ---------------ACCCTGCTCATGACTGAGC-------------------------------------------------------------- | 19 | 3 | |
| -----------------------------------------------------------------------TCCTGCACTTTACTTTTACCTGACA | 25 | 1 | |
| ---------------------------------------------------------------------TCTCCTGCACTTTACTTTT-------- | 19 | 1 | |
| rat | gtgtgaggcagaaaaACCCTGCTCATGACTGAGCcttgactgatgaggccttgagtttttgcagggaatTCTCCTGCACTTTACTTTTACCTGACA | ||
| ************************************************************************************************ | |||
| rat | ((((.(((.((((...((((((....(((((((((((.......))))).)).))))...))))))..)))))))))))................. | 0.980 -31.10 |
| rat | chromosome:17:17504052:17504147:-1 | intergenic |
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