other hairpins
novel_lenNOK_multiarm_DicerNOK_loopOverlap_nonpairedHIGH_bulgeHIGH (265 loci)
sblock7089 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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 | 0.497 | no | no | 0.37/0.56 | 18/23/0.50 | 0.0 0.0 0.0 0.0 | 0.0 0.0 0.0 0.0 | 1 1 3 1 | 0 0 0 0 | 1 1 1 1 | 0 0 0 0 | 24 43 20 0 | 6 -14 5 29 | 5arm 5arm_loop_3arm 3arm 3arm | 1 3 3 3 | nd nd nd nd | 0.56 0.53 0.35 0.61 | 6 10 4 9 | 6 | 2 | 0 | 7 |
| reads | miRBase family seed | |||
| seed | ----------------------------------------------------------------AAGACCU----------------------------------- | 3 | novel | |
| seed | -------------------------GUACCUA-------------------------------------------------------------------------- | 1 | novel | |
| seed | ----------------------------------------------------------------------------------------UCACAGG----------- | 1 | novel | |
| seed | --------------------------------------------CAUGAAG------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T3S1 | |||
| ---------------------------------------------------------------CAAGACCTTCGGATAGAAGTGAC-------------------- | 23 | 3 | - | |
| -------------------------------------------ACATGAAGAACACAACATG-------------------------------------------- | 19 | 1 | - | |
| ------------------------CGTACCTACAACGTCCTG---------------------------------------------------------------- | 18 | - | 1 | |
| ---------------------------------------------------------------------------------------GTCACAGGCTATGTGGAAT | 19 | 1 | - | |
| rat | ggtctccgactgagtcagatccttCGTACCTACAACGTCCTGgACATGAAGAACACAACATGcCAAGACCTTCGGATAGAAGTGACgGTCACAGGCTATGTGGAAT | |||
| ********************************************************************************************************** | ||||
| rat | (((((..((((..((((....((((...((......(((.(((.((((..........))))))).)))....))...))))))))))))..)))))......... | 0.490 -24.70 | ||
| rat | chromosome:20:4117681:4117786:1 | intergenic |
block5281 [novel_mirtron]
| 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 | 0.062 | no | no | 0.57/0.57 | 23/23/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 21 | 6 | 3arm | 1 | 0 | 0.22 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------AUACUGU------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| --------------------------------------------------------------GATACTGTCTCCTCTCCCCACAG--------------------- | 23 | 1 | |
| rat | gccatctcccttcacccacttcctgggttggtttagaggaacgggtaagcaggcctccaggtGATACTGTCTCCTCTCCCCACAGgtgtgaatgacagaggtggtg | ||
| ********************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000009936 ENSRNOG00000007280 RGD1308915 | ||
| rat | ((((((((...(((..(((..((((((..((...((((((((((....((.((...))..))....)))).)))))))))).)))).)))..)))..)))))))). | 0.560 -38.40 |
| rat | chromosome:10:11900419:11900524:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000009936|ENSRNOG00000007280 ## ENSRNOG00000007280|protein_coding|RGD1308915|GNAT acetytransferase. [Source:UniProtKB/TrEMBL;Acc:Q7TMZ6] |
block7275 [novel_mirtron]
| 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 | 0.072 | no | no | 0.59/0.59 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 18 | 3 | 3arm | 1 | 0 | 0.23 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------GACUCUU-------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| --------------------------------------------------------TGACTCTTGCCTACCCCTGCAG------------------ | 22 | 1 | |
| rat | actgaggccaatgtgtcatagcaggtgtgggaggagagagagttgagaggggcctcTGACTCTTGCCTACCCCTGCAGagaaagcctgccctccag | ||
| ************************************************************************************************ | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000026395 ENSRNOG00000019445 Msln | ||
| rat | .((((((.((.....((...(((((.(((((......(((((((.((((....))))))))))).))))).)))))...)).....)).)))).)) | 0.910 -36.30 |
| rat | chromosome:10:15019296:15019391:-1 | Same_strand|Intronic_coding|ENSRNOT00000026395|ENSRNOG00000019445 ## ENSRNOG00000019445|protein_coding|Msln|Mesothelin precursor (Pre-pro-megakaryocyte-potentiating factor) (Protein expressed in renal carcinoma) [Contains: Megakaryocyte- potentiating factor (MPF); Mesothelin, cleaved form]. [Source:UniProtKB/Swiss-Prot;Acc:Q9ERA7] |
block15557 [novel_mirtron]
| 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 | 0.108 | no | no | 0.55/0.55 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 25 | 12 | 3arm | 1 | 2 | 0.30 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------UGACUUG------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -------------------------------------------------------------------------CTGACTTGCCACTCTCTTGC------------------------- | 20 | 1 | |
| rat | caggtggcagcctagcaatggaaaggcaggagagccggggtgggtgagtagtgagggatttctgagcagctccCTGACTTGCCACTCTCTTGCagtgagttctatgagcctgaggcct | ||
| ********************************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000004740 ENSRNOG00000003536 Rufy1 | ||
| rat | .((((..(((.((....((((((..(((((((((.((((..(((.((((.((..((.....))..)).)))))))..))))...)))))))))......)))))).)).)))..)))) | 0.980 -44.10 |
| rat | chromosome:10:35964419:35964536:-1 | Same_strand|Intronic_coding|ENSRNOT00000004740|ENSRNOG00000003536 ## ENSRNOG00000003536|protein_coding|Rufy1|Rufy1 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q4FZR3] |
block17902 [novel_mirtron]
| 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 | 0.097 | no | no | 0.50/0.50 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 16 | 6 | 3arm | 1 | 1 | 0.23 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------CUUCUCC------------------------------ | 1 | miR-207 |
| len | cloning frequencies | ||
| T3S1 | |||
| -----------------------------------------------------------GCTTCTCCAACTCTTCTCTAGG---------------- | 22 | 1 | |
| rat | tccatgccagggttagggtggggtggggagaaccgtgcactgggctgggtaaatcctgtGCTTCTCCAACTCTTCTCTAGGagagcttctggaggaa | ||
| ************************************************************************************************* | |||
| ....................................................................................>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000041563 ENSRNOG00000010370 NP_001102296.1 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000058728 ENSRNOG00000010370 NP_001102296.1 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000048600 ENSRNOG00000010370 NP_001102296.1 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000013864 ENSRNOG00000010370 NP_001102296.1 | ||
| rat | (((...((((((((((((.(((((..((((((....((((.(((.........))).)))))))))).))))).))))).....))).)))).))). | 0.930 -34.60 |
| rat | chromosome:10:40345745:40345841:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000041563|ENSRNOG00000010370 ## Same_strand|Boundary_coding|ENSRNOT00000048600|ENSRNOG00000010370 ## ENSRNOG00000010370|protein_coding|NP_001102296.1|TNFAIP3 interacting protein 1 [Source:RefSeq_peptide;Acc:NP_001102296] |
block17957 [novel_mirtron]
| 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 | 0.441 | no | no | 0.64/0.64 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 15 | 2 | 5arm | 1 | 0 | 0.18 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----------------GUAAGCC-------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| ---------------GGTAAGCCACATGGGGGAGGGA------------------------------------------------------------ | 22 | 1 | |
| rat | gtccctctatggcaaGGTAAGCCACATGGGGGAGGGAagcgtcacttcctgtccaactctgccttctgctggctcgtcttcatccgtcagtctcacg | ||
| ************************************************************************************************* | |||
| >>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000014464 ENSRNOG00000010668 Anxa6 | ||
| rat | ((....((((((.((((..(((((((.((.(((((((((.....))))).......)))).))...)).)))))..))))...)))).))....)). | 0.860 -27.71 |
| rat | chromosome:10:40418820:40418916:-1 | Same_strand|Boundary_coding|ENSRNOT00000014464|ENSRNOG00000010668 ## ENSRNOG00000010668|protein_coding|Anxa6|Annexin A6 (Annexin-6) (Annexin VI) (Lipocortin VI) (P68) (P70) (Protein III) (Chromobindin-20) (67 kDa calelectrin) (Calphobindin-II) (CPB-II) (Calcium-binding protein CATA 65/67). [Source:UniProtKB/Swiss-Prot;Acc:P48037] |
block20647 [novel_mirtron]
| 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 | 0.046 | no | no | 0.61/0.65 | 20/23/1.00 | 0.0 | 1.3 | 3 | 0 | 1 | 0 | 7 | 7 | 3arm | 1 | 1 | 0.25 | 3 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------UCCACCC---------------------- | 3 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ------------------------------------------------TTCCACCCACCCCTCCTCAC---------- | 20 | 1 | |
| ------------------------------------------------TTCCACCCACCCCTCCTCACA--------- | 21 | 1 | |
| ------------------------------------------------TTCCACCCACCCCTCCTCACAGT------- | 23 | 1 | |
| rat | ggcatcggtgtgggaagggactgtagggaagaggatgcctaatctctgTTCCACCCACCCCTCCTCACAGTggatcca | ||
| ****************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000004753 ENSRNOG00000003463 Srebf1 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000004488 ENSRNOG00000003463 Srebf1 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>> | ENSRNOT00000047053 ENSRNOG00000003463 Srebf1 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>> | ENSRNOT00000042979 ENSRNOG00000003463 Srebf1 | ||
| rat | ((..(((.((((((.((((..((...((((.(((((.....))).)).))))...)).)))).)))))).)))..)). | 1.000 -29.50 |
| rat | chromosome:10:46464941:46465018:-1 | Same_strand|Boundary_coding|ENSRNOT00000047053|ENSRNOG00000003463 ## Same_strand|Intronic_coding|ENSRNOT00000004753|ENSRNOG00000003463 ## Same_strand|Boundary_non-coding|ENSRNOT00000058155|ENSRNOG00000003463 ## ENSRNOG00000003463|protein_coding|Srebf1|Sterol regulatory element-binding protein 1 (SREBP-1) (Sterol regulatory element-binding transcription factor 1) (Adipocyte determination- and differentiation-dependent factor 1) (ADD1) [Contains: Processed sterol regulatory element-binding protein 1] (Fr [Source:UniProtKB/Swiss-Prot;Acc:P56720] |
block20872 [novel_mirtron]
| 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 | 0.020 | no | no | 0.50/0.57 | 18/24/0.78 | 0.0 | 4.1 | 9 | 0 | 3 | 0 | 14 | 7 | 5arm | 1 | 1 | 0.17 | 2 | 9 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ---------------CAAGUCC--------------------------------------------------------------------------------- | 9 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T1S2 | T5S1 | |||
| --------------TCAAGTCCTGCTCCTATGTCCCC------------------------------------------------------------------ | 23 | 2 | 1 | - | |
| --------------TCAAGTCCTGCTCCTATGTCCCCA----------------------------------------------------------------- | 24 | 1 | 1 | 1 | |
| --------------TCAAGTCCTGCTCCTATG----------------------------------------------------------------------- | 18 | - | 2 | - | |
| --------------TCAAGTCCTGCTCCTATGTCCC------------------------------------------------------------------- | 22 | - | - | 1 | |
| rat | gtttctccatagagTCAAGTCCTGCTCCTATGTCCCCAggaaagcacagatgcccgagcacctgggggaaaggtacggcgctgggaccagggcctggagaagc | ||||
| ******************************************************************************************************* | |||||
| ++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000006753 ENSRNOG00000004159 Fliih | ||||
| rat | ((((((((..((.(((..(((((((.(((((.((((((((...((............)).))))))))....))).)).)).)))))...))))))))))))) | 0.780 -41.40 | |||
| rat | chromosome:10:46866788:46866890:-1 | Same_strand|Intronic_coding|ENSRNOT00000006753|ENSRNOG00000004159 ## ENSRNOG00000004159|protein_coding|Fliih|flightless I homolog [Source:RefSeq_peptide;Acc:NP_001008280] |
block25172 [novel_mirtron]
| 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 | 0.024 | no | no | 0.52/0.52 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 17 | 18 | 3arm | 1 | 4 | 0.29 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------CCUCUUU------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------------------------------------------------------------------------------CCCTCTTTCATGAGCAGAGTC----------------- | 21 | 1 | |
| rat | ggttcctacatttcagccattcaggcgttgagaagggctgggaaggttgtgtaagatccttaacatcttagtcaaactctggCCCTCTTTCATGAGCAGAGTCctgatgtcctgggagcc | ||
| ************************************************************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000019085 ENSRNOG00000014171 Tnfsf13 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000056903 ENSRNOG00000014171 Tnfsf13 | ||
| rat | ((((((((....((((..((((..((..((((((((((..((....(((..((((((.......))))))..)))..))..))))).)))))...)).)))).)))).....)))))))) | 0.970 -41.50 |
| rat | chromosome:10:56502099:56502218:-1 | Same_strand|Boundary_coding|ENSRNOT00000019085|ENSRNOG00000014171 ## ENSRNOG00000014171|protein_coding|Tnfsf13|tumor necrosis factor (ligand) superfamily, member 13 [Source:RefSeq_peptide;Acc:NP_001009623] |
block25379 [novel_mirtron]
| 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 | 0.112 | no | no | 0.52/0.52 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 7 | 16 | 3arm | 1 | 0 | 0.29 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------GUGUCCU-------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| --------------------------------------------------------------------TGTGTCCTTCCCTCACCTTAG------- | 21 | 1 | |
| rat | gaatgccgggaagaatgaaggagaccgctctgtaaggagagggtcgccagaagagcttcctcctttgcTGTGTCCTTCCCTCACCTTAGgaagtct | ||
| ************************************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>> | ENSRNOT00000056852 ENSRNOG00000015975 LOC497940 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>> | ENSRNOT00000021402 ENSRNOG00000015975 LOC497940 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>> | ENSRNOT00000056851 ENSRNOG00000015975 LOC497940 | ||
| rat | ((...(((((..((..((((((.((.((.....(((((((((.((.......)).)))).))))).)).)).))))))..)).)))..))...)). | 1.000 -31.90 |
| rat | chromosome:10:56743818:56743913:-1 | Same_strand|Intronic_coding|ENSRNOT00000056852|ENSRNOG00000015975 ## ENSRNOG00000015975|protein_coding|LOC497940|similar to RIKEN cDNA 2810408A11 (LOC497940), mRNA [Source:RefSeq_dna;Acc:NM_001017476] |
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