other hairpins
block621849 [novel]
| 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 | 0.048 | no | no | 0.60/0.60 | 20/20/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 8 | 19 | 3arm | 10 | nd | 0.30 | 3 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------------------------GGCAGAG-------------------- | 2 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ------------------------------------------------------------------------CGGCAGAGAAACGGTGTCAG-------- | 20 | 2 | |
| rat | gcttccacagcacagcacctgtacctctgtggtcatgcaggggttggttccatgaccaagatctacagaggaCGGCAGAGAAACGGTGTCAGgcctagcc | ||
| **************************************************************************************************** | |||
| -------------------------------------------------------------------------------------------------------------- | ENSRNOT00000021703 ENSRNOG00000016046 NP_001099587.1 | ||
| rat | (((......((...(((((.((..((((((.(((.((.(((..((((((....))))))..))).))...))).))))))..)))))))...))..))). | 0.760 -36.50 |
| rat | chromosome:17:59095238:59095337:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000021703|ENSRNOG00000016046 ## ENSRNOG00000016046|protein_coding|NP_001099587.1|similar to HECT type E3 ubiquitin ligase (predicted) (RGD1561038_predicted), mRNA [Source:RefSeq_dna;Acc:NM_001106117] |
block678363 [novel]
| 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 | 0.146 | no | no | 0.70/0.70 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 5 | 17 | 3arm | 4 | nd | 0.15 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------CCUGGCU----------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------------------------------------------------------------------GCCTGGCTCGGTGGCCAAAG----- | 20 | 1 | |
| rat | tggcggcagtggtgttcttacatcagtcaggggcagagcagaaggcagcccttgttcatcctagctcgatGCCTGGCTCGGTGGCCAAAGccgtt | ||
| *********************************************************************************************** | |||
| rat | .((((((..((((.......(((((((((((....((((...(((.(((....)))...))).))))....))))))).))))))))..)))))) | 0.530 -34.31 |
| rat | chromosome:17:85529730:85529824:1 | intergenic |
novel_lenNOK_randfoldOK (7326 loci)
block287 [novel_lenNOK_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 | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 9 | 31 | 3arm | 2 | nd | 0.28 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------------GGGGGUG------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| ----------------------------------------------------------------------------------------TGGGGGTGCTTTTGACCA--------- | 18 | 1 | |
| rat | catcatcatggaaaccagctcctatcctgtttcagtgctaggatggtcaaccagtggctgtgttgcttatcttggctggggcagggttTGGGGGTGCTTTTGACCAttggctgat | ||
| ******************************************************************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061841 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061840 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061838 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061835 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061834 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000044108 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000046607 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061831 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000041358 ENSRNOG00000032748 LOC688339 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061830 ENSRNOG00000032748 LOC688339 | ||
| rat | .(((((((((((((.((.((((.(((((((..((..((((((((((.(((((((...))).)))).))))))))))))..)))))))..)))).)).)))...)))).)).)))) | 1.000 -45.80 |
| rat | chromosome:10:454247:454361:-1 | Same_strand|Intronic_coding|ENSRNOT00000061841|ENSRNOG00000032748 ## ENSRNOG00000032748|protein_coding|LOC688339|Multidrug resistance-associated protein 1 (ATP-binding cassette sub- family C member 1) (Leukotriene C(4) transporter) (LTC4 transporter). [Source:UniProtKB/Swiss-Prot;Acc:Q8CG09] |
block457 [novel_lenNOK_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 | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 6 | 27 | 3arm | 1 | nd | 0.11 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------------------UCUUGCU---------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ----------------------------------------------------------------------------------------------TTCTTGCTGCTGGCTGCT------ | 18 | 1 | |
| rat | ggtcacattgaggcacagcaggcaaggactccttggaggtgtccagcctctcagagtctcatgggctggctattttggttgattcctccgggagTTCTTGCTGCTGGCTGCTgagact | ||
| ********************************************************************************************************************** | |||
| -------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000037611 ENSRNOG00000000029 MYH11_RAT | ||
| -------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000044317 ENSRNOG00000000029 MYH11_RAT | ||
| -------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000050218 ENSRNOG00000000029 MYH11_RAT | ||
| -------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000030661 ENSRNOG00000000029 MYH11_RAT | ||
| rat | ((((.((....(((.(((((.(((((((((((.((((((.((.(((((......((((.........)))).....))))))).)))))))))))))))))))))))))..)).)))) | 0.980 -56.80 |
| rat | chromosome:10:689008:689125:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000050218|ENSRNOG00000000029 ## ENSRNOG00000000029|protein_coding|MYH11_RAT|Myosin-11 (Myosin heavy chain 11) (Myosin heavy chain, smooth muscle isoform) (SMMHC) (Fragments). [Source:UniProtKB/Swiss-Prot;Acc:Q63862] |
block520 [novel_lenNOK_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 | 0.005 | no | no | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 34 | 0 | 5arm | 1 | nd | 0.22 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------UGUGUGU--------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| ----------------------------------GTGTGTGTGCAAATGGGG----------------------------------------------------------- | 18 | 1 | |
| rat | gatctgtattcctcatatcccatagttcttttctGTGTGTGTGCAAATGGGGagatgctcccatgtgtgtacagaccagaggtcagctttgggtgtcttcaatctatgatc | ||
| *************************************************************************************************************** | |||
| ------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000003193 ENSRNOG00000002314 Lkap | ||
| rat | ((((..............((((.((((..((((((.((.((((((.((((((......))))))...)))))).))))))))..)))).))))..............)))) | 0.970 -38.59 |
| rat | chromosome:10:830399:830509:-1 | Opposite_strand|Intronic_non-coding|ENSRNOT00000003193|ENSRNOG00000002314 ## ENSRNOG00000002314|protein_coding|Lkap|Limkain-b1. [Source:UniProtKB/Swiss-Prot;Acc:Q8VIG2] |
block672 [novel_lenNOK_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 | 0.56/0.56 | 18/18/0.00 | 0.0 | 0.0 | 2 | 0 | 2 | 0 | 24 | 4 | 3arm | 1 | nd | 0.28 | 3 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -------------------------------------------------------------------GCUGGCC---------------------------------- | 2 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| ------------------------------------------------------------------AGCTGGCCCACAAAGTTC------------------------ | 18 | 1 | 1 | |
| rat | tccatcctggaagcaggggagaaagtggagagggcaaaaagactcagaaaagccgctcactagagcAGCTGGCCCACAAAGTTCtttcttgaagttccaggctttggg | |||
| ************************************************************************************************************ | ||||
| rat | .(((.(((((((.((((..((((..((....((((...............(((.((((....)))).))).)))).))...))))..))))...)))))))...))). | 0.450 -42.39 | ||
| rat | chromosome:10:1179160:1179267:-1 | intergenic |
block731 [novel_lenNOK_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 | 0.010 | no | no | 0.28/0.28 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 22 | 19 | 5arm | 2 | nd | 0.28 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------AUGUAGU------------------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| ----------------------TATGTAGTTTCATGTTGT-------------------------------------------------------------------------------- | 18 | 1 | |
| rat | agttctttcttcgtgctttaaaTATGTAGTTTCATGTTGTgatggattcttgacttaagtgtcttaagtcagttttccacattatagagaatggtgtaatcttttaatgcacagattgct | ||
| ************************************************************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000061717 ENSRNOG00000040125 | ||
| rat | (((....(((..((((.(((((((((..((((..(((.(((.((((...((((((((((...))))))))))...))))))).)))..))))..))))....))))).)))))))..))) | 0.840 -28.70 |
| rat | chromosome:10:1308822:1308941:-1 | Same_strand|Intronic_coding|ENSRNOT00000061717|ENSRNOG00000040125 ## ENSRNOG00000040125|protein_coding|| |
block1016 [novel_lenNOK_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 | 0.83/0.83 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 12 | 3 | 3arm | 1 | nd | 0.22 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------GGCGGGC---------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| ------------------------------------------------AGGCGGGCAGGCGGGGCT------------ | 18 | 1 | |
| rat | ccaggttatgctggcagtgcacgcctgtagtgcactatagaaacgatgAGGCGGGCAGGCGGGGCTgccatgaatttg | ||
| ****************************************************************************** | |||
| ---------------------------------------------------------------------------------------- | ENSRNOT00000003927 ENSRNOG00000002912 RGD1565449_predicted | ||
| ---------------------------------------------------------------------------------------- | ENSRNOT00000061645 ENSRNOG00000002912 RGD1565449_predicted | ||
| ---------------------------------------------------------------------------------------- | ENSRNOT00000061644 ENSRNOG00000002912 RGD1565449_predicted | ||
| rat | .((((((....(((((((...(((((((..(((..(((.......)))..))).)))))))..)))))))..)))))) | 1.000 -30.30 |
| rat | chromosome:10:1888957:1889034:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000003927|ENSRNOG00000002912 ## ENSRNOG00000002912|protein_coding|RGD1565449_predicted| |
block1624 [novel_lenNOK_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 | 0.61/0.61 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 31 | 8 | 5arm | 2 | nd | 0.22 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------ACACUGG--------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -------------------------------GACACTGGAGAGAGGCAG----------------------------------------------------------------------- | 18 | 1 | |
| rat | agatgaatgctggcatcagccctgtgggcagGACACTGGAGAGAGGCAGgactgtgttaacaagttcactgcttagcctgtcctctccggagcaggcccagctgctcttgcaggcatctg | ||
| ************************************************************************************************************************ | |||
| ---------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000045047 ENSRNOG00000015118 RGD1306568 | ||
| rat | (((((..(((.((...((((....(((((......((((((((.((((((.(((.((.............)).))))))))))))))))).....)))))))))..)).)))..))))). | 0.710 -51.12 |
| rat | chromosome:10:3692801:3692920:-1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000020422|ENSRNOG00000015118 ## Opposite_strand|Intronic_coding|ENSRNOT00000045047|ENSRNOG00000015118 ## ENSRNOG00000015118|protein_coding|RGD1306568|similar to C530044N13Rik protein (RGD1306568), mRNA [Source:RefSeq_dna;Acc:NM_001013963] |
block1779 [novel_lenNOK_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 | 0.010 | no | no | 0.58/0.58 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 18 | 7 | 5arm | 4 | nd | 0.26 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------AGGGUAU------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| ------------------TAGGGTATGGCCGCATGCA------------------------------------------------------- | 19 | 1 | |
| rat | ggtcagcagtgcatgctgTAGGGTATGGCCGCATGCAccagcctctgcaggagtgtgcgtggtcagcagtgcaccagctttactgttgactc | ||
| ******************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000003150 ENSRNOG00000002294 LOC687335 | ||
| rat | ((((((((((((.((.((((..((.(((((((..((((...(((....))).))))..)))))))))..)))).))))...)))))))))). | 0.970 -39.10 |
| rat | chromosome:10:4003590:4003681:-1 | Same_strand|Intronic_coding|ENSRNOT00000003150|ENSRNOG00000002294 ## ENSRNOG00000002294|protein_coding|LOC687335|similar to kinesin-like motor protein C20orf23 (LOC689142), mRNA [Source:RefSeq_dna;Acc:NM_001109526] ## {Repeats: trf 38 57 0 class=trf} |
| Back to summary page | other hairpins: | Page 1 | Jump 10 pages back | Previous page | Page 22052 | Next page | Jump 10 pages forward | Page 31204 |
©2008 InteRNA Genomics B.V.