other hairpins
novel_lenNOK_shortStem_mirtron_randfoldOK (11 loci)
block104706 [novel_lenNOK_shortStem_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 | 0.63/0.63 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 1 | 5arm | 1 | 3 | 0.21 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----GGUCACC-------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| ----AGGTCACCCCATGTCCCCT--------------------------- | 19 | 1 | |
| rat | aggtAGGTCACCCCATGTCCCCTgtcccaggggcttggggctgtctctct | ||
| ************************************************** | |||
| >>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000049753 ENSRNOG00000024954 NP_001100538.1 | ||
| >>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000034231 ENSRNOG00000024954 NP_001100538.1 | ||
| rat | .((..((.(((((((...((((((...))))))..))))).)).))..)) | 1.000 -22.60 |
| rat | chromosome:10:107086096:107086145:1 | Same_strand|Intronic_coding|ENSRNOT00000034231|ENSRNOG00000024954 ## ENSRNOG00000024954|protein_coding|NP_001100538.1|mannoside acetylglucosaminyltransferase 5, isoenzyme B [Source:RefSeq_peptide;Acc:NP_001100538] |
block675715 [novel_lenNOK_shortStem_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 | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 37 | 3arm | 1 | 3 | 0.22 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------------------------ACGCACC------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ----------------------------------------------------------------------------------------------------TACGCACCCTCTTCCTTC-- | 18 | 1 | |
| rat | ggggtagagggtgggtagaaatagtaagaaaggcacacagaattggagcaagggccgtttccagctctgcctcgtgactgtgttggcccttccctaacccTACGCACCCTCTTCCTTCca | ||
| ************************************************************************************************************************ | |||
| ++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++>>>> | ENSRNOT00000038817 ENSRNOG00000001066 Itih2 | ||
| ++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++>>>> | ENSRNOT00000058121 ENSRNOG00000001066 Itih2 | ||
| rat | ((((.((((((((.((((...(((...(((.(((((((((...((..((.(((((........)))))))..))...))))))..))).))).)))...)))).)))))))).))))... | 1.000 -50.60 |
| rat | chromosome:17:79726444:79726563:1 | Same_strand|Intronic_coding|ENSRNOT00000058121|ENSRNOG00000001066 ## ENSRNOG00000001066|protein_coding|Itih2|inter-alpha trypsin inhibitor, heavy chain 2 Gene [Source:MGI (curated);Acc:Itih2-001] |
block1050425 [novel_lenNOK_shortStem_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 | 0.007 | no | no | 0.63/0.63 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 39 | 3arm | 1 | 0 | 0.00 | 0 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------------------------------------------UGGGUGC------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| -----------------------------------------------------------------------------------------------GTGGGTGCTGGGCTTACAG-- | 19 | 1 | |
| rat | gcttgtgagcatcagatgctcattgggtggctgggctatggttctgtccaggtttgcttggttaaggacccttctcataaaagtataatttccgtGTGGGTGCTGGGCTTACAGgt | ||
| ******************************************************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>> | ENSRNOT00000027521 ENSRNOG00000020304 Pdcd11_predicted | ||
| rat | ((((((((((.((((.(((((((((((..((((((....((((((..(((((....)))))...))))))...)))).....))......)))).))))))))))))))))))))) | 0.510 -42.70 |
| rat | chromosome:1:252421036:252421151:1 | Same_strand|Boundary_non-coding|ENSRNOT00000027512|ENSRNOG00000020304 ## Same_strand|Intronic_coding|ENSRNOT00000027521|ENSRNOG00000020304 ## ENSRNOG00000020304|protein_coding|Pdcd11_predicted|programmed cell death protein 11 [Source:RefSeq_peptide;Acc:NP_001101074] |
block1060002 [novel_lenNOK_shortStem_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 | 0.61/0.61 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 5 | 5arm | 1 | 3 | 0.11 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----GAGGUAG------------------------------------------------------ | 1 | let-7a/7b/7c/7d/7e/7f/7i/miR-98 |
| len | cloning frequencies | ||
| T1S1 | |||
| ----TGAGGTAGGAGGGGCTGT-------------------------------------------- | 18 | 1 | |
| rat | gtgtTGAGGTAGGAGGGGCTGTgttggaatacaagccaaaagcagcccctctttgcccagtgcaca | ||
| ****************************************************************** | |||
| >>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000035819 ENSRNOG00000025864 Lemd2 | ||
| rat | ((((((.(((((((((((((((.((((........))))..)))))))))))).)))))..)))). | 1.000 -35.30 |
| rat | chromosome:20:5433112:5433177:-1 | Same_strand|Intronic_coding|ENSRNOT00000035819|ENSRNOG00000025864 ## ENSRNOG00000025864|protein_coding|Lemd2|LEM domain containing 2 [Source:RefSeq_peptide;Acc:NP_001034121] |
block1448101 [novel_lenNOK_shortStem_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 | 0.008 | no | no | 0.50/0.50 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 29 | 3arm | 1 | 4 | 0.22 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------------------UCCUGUG------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ----------------------------------------------------------------------------------------------TTCCTGTGTTTCAACCCC-- | 18 | 1 | |
| rat | ctgtaggtagatgccacaggaagtcttcacggtcctagtcctttctagatgttaaggcttcgttatctaaaatcagtaagggctaatggcttacTTCCTGTGTTTCAACCCCag | ||
| ****************************************************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>> | ENSRNOT00000006341 ENSRNOG00000004680 KIF5C_RAT | ||
| rat | (((..(((.((...((((((((((......((((.((((((((.((.(((....(((........)))...))))).))))))))..)))).))))))))))..)).))).))) | 1.000 -34.20 |
| rat | chromosome:3:30691944:30692057:1 | Same_strand|Intronic_coding|ENSRNOT00000006341|ENSRNOG00000004680 ## ENSRNOG00000004680|protein_coding|KIF5C_RAT|Kinesin heavy chain isoform 5C (Kinesin heavy chain neuron-specific 2) (Fragment). [Source:UniProtKB/Swiss-Prot;Acc:P56536] |
block1767730 [novel_lenNOK_shortStem_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 | 0.004 | no | no | 0.43/0.44 | 18/21/0.50 | 0.0 | 1.5 | 2 | 0 | 2 | 0 | 3 | 2 | 3arm | 1 | 0 | 0.11 | 1 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------GUGUCCU---------------- | 2 | novel | |
| len | cloning frequencies | |||
| T1S1 | T4S1 | |||
| -------------------------------------------------TGTGTCCTGTTTCCTTTC------ | 18 | - | 1 | |
| -------------------------------------------------TGTGTCCTGTTTCCTTTCTAG--- | 21 | 1 | - | |
| rat | tttcagtgggagggagcaggaaagaaaacgaacaccttctgttcattggTGTGTCCTGTTTCCTTTCTAGagg | |||
| ************************************************************************* | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> | ENSRNOT00000029441 ENSRNOG00000026323 4930579C15Rik | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> | ENSRNOT00000051399 ENSRNOG00000026323 4930579C15Rik | |||
| rat | .(((...((((((((((((((..........(((((...........))))).))))))))))))))..))). | 1.000 -26.80 | ||
| rat | chromosome:5:115223833:115223905:-1 | Same_strand|Intronic_coding|ENSRNOT00000029441|ENSRNOG00000026323 ## ENSRNOG00000026323|protein_coding|4930579C15Rik|RIKEN cDNA 4930579C15 gene Gene [Source:MGI Symbol;Acc:MGI:1915003] |
block2417790 [novel_lenNOK_shortStem_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 | 0.68/0.68 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 31 | 3arm | 1 | 3 | 0.26 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------------CCCUACC------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| --------------------------------------------------------------------------------------GCCCTACCTCCTGCAGACC-- | 19 | 1 | |
| rat | ggggtggtactggggcggggccaggggtggtgccccttccactctcggacaaaggtgtctggcagggaaggggaagttgctcagtaGCCCTACCTCCTGCAGACCcc | ||
| *********************************************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>> | ENSRNOT00000051353 ENSRNOG00000030800 Punc | ||
| rat | (((((.(((..((((..((((...((((((..((((((((.((.(((((((....))))))).))))))))))...))))))....))))..)))).)))..))))) | 1.000 -57.20 |
| rat | chromosome:8:69431869:69431975:1 | Same_strand|Boundary_coding|ENSRNOT00000051353|ENSRNOG00000030800 ## ENSRNOG00000030800|protein_coding|Punc|putative neuronal cell adhesion molecule Gene [Source:MGI Symbol;Acc:MGI:1202390] |
block2474856 [novel_lenNOK_shortStem_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 | 0.68/0.68 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 1 | 5 | 3arm | 1 | 2 | 0.26 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------CUCCGCC------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ----------------------------------------------------TCTCCGCCCTCCCTCTTCC- | 19 | 1 | |
| rat | ggaagtgggaggttgagacctctgccttttccttctcacttactgtcgctgtTCTCCGCCCTCCCTCTTCCa | ||
| ************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>> | ENSRNOT00000026929 ENSRNOG00000019900 Dsm-1 | ||
| rat | (((((.((((((..((((.....((......................))...))))...)))))).))))). | 0.820 -23.35 |
| rat | chromosome:9:11040495:11040566:-1 | Same_strand|Intronic_coding|ENSRNOT00000026929|ENSRNOG00000019900 ## ENSRNOG00000019900|protein_coding|Dsm-1|D-serine modulator-1 (Dsm-1), mRNA [Source:RefSeq_dna;Acc:NM_001037215] |
novel_multiarm_DicerNOK_Multihit_nonpairedHIGH_bulgeHIGH (11 loci)
sblock10617 [novel_multiarm_DicerNOK_Multihit_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 | 0.151 | no | no | 0.30/0.45 | 18/23/0.75 | 0.0 0.0 0.0 | 0.0 0.0 0.5 | 1 1 2 | 0 0 0 | 1 1 2 | 0 0 0 | 15 28 16 | 18 3 13 | 5arm 5arm 3arm | 10 10 11 | nd nd nd | 0.44 0.40 0.65 | 4 4 11 | 4 | 2 | 15 | 18 |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------------------------------------CUCAUUA------------------------------- | 2 | novel | |
| seed | ----------------AUGUCUA------------------------------------------------------------------------------------------ | 1 | novel | |
| seed | -----------------------------GAGAAUC----------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T4S1 | T5S1 | |||
| --------------------------------------------------------------------------TCTCATTACACAAAAATGTCTC----------------- | 22 | 1 | - | |
| ---------------CATGTCTACAGTTTGAGA-------------------------------------------------------------------------------- | 18 | - | 1 | |
| --------------------------------------------------------------------------TCTCATTACACAAAAATGTCTCA---------------- | 23 | - | 1 | |
| ----------------------------TGAGAATCTGGATAGGTGAC----------------------------------------------------------------- | 20 | - | 1 | |
| rat | ttccatacctcagagCATGTCTACAGTTTGAGAATCTGGATAGGTGACagtcgagctaagtacttcacatttccTCTCATTACACAAAAATGTCTCAatgttctcaatggagg | |||
| ***************************************************************************************************************** | ||||
| rat | ((((((.....(((((((....(((...(((((....(((...((((.(((..........)))))))...))))))))...........)))....)))))))..)))))). | 0.710 -23.04 | ||
| rat | chromosome:7:17358529:17358641:-1 | intergenic |
sblock10653 [novel_multiarm_DicerNOK_Multihit_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 | 0.135 | no | no | 0.30/0.45 | 18/23/0.75 | 0.0 0.0 0.0 | 0.0 0.0 0.5 | 1 1 2 | 0 0 0 | 1 1 2 | 0 0 0 | 6 19 4 | 18 3 13 | 5arm 5arm 3arm | 10 10 11 | nd nd nd | 0.61 0.40 0.52 | 10 4 10 | 4 | 2 | 15 | 18 |
| reads | miRBase family seed | |||
| seed | ------------------------------------------------------------------CUCAUUA------------------- | 2 | novel | |
| seed | --------------------GAGAAUC----------------------------------------------------------------- | 1 | novel | |
| seed | -------AUGUCUA------------------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T4S1 | T5S1 | |||
| ------CATGTCTACAGTTTGAGA-------------------------------------------------------------------- | 18 | - | 1 | |
| -------------------TGAGAATCTGGATAGGTGAC----------------------------------------------------- | 20 | - | 1 | |
| -----------------------------------------------------------------TCTCATTACACAAAAATGTCTCT---- | 23 | - | 1 | |
| -----------------------------------------------------------------TCTCATTACACAAAAATGTCTC----- | 22 | 1 | - | |
| rat | ttggagCATGTCTACAGTTTGAGAATCTGGATAGGTGACagtcgagctaagtacttcacatttccTCTCATTACACAAAAATGTCTCTcaat | |||
| ******************************************************************************************** | ||||
| rat | (((((((((..........(((((....(((...((((.(((..........)))))))...))))))))..........))).))).))). | 0.990 -18.35 | ||
| rat | chromosome:7:17805717:17805808:-1 | intergenic |
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