DreINT0099769 @ danRer10
Intron Retention
Gene
ENSDARG00000009782 | myh11a
Description
myosin, heavy chain 11a, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-050531-1]
Coordinates
chr6:8294249-8295688:-
Coord C1 exon
chr6:8295580-8295688
Coord A exon
chr6:8294381-8295579
Coord C2 exon
chr6:8294249-8294380
Length
1199 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CTTTCCATCTATTGCCACAGGTA
3' ss Score
10.24
Exon sequences
Seq C1 exon
GGCCTTTGCCAAGAGGCAGCAACAGCTAACAGCTATGAAGGTGATCCAGAGGAACTGCGCTGCTTATCTGAAACTCAGGAACTGGCAGTGGTGGAGACTCTTCACTAAG
Seq A exon
GTGAGACTTTACCAGGGTGTCCGTGGATCTCTAAATTCATTTTAAAGTCTTAAATTCTTTAATATAAAAAAGGCCTCGTGTTTTTTGAGTTTCAGAGGTCTTAAAACTGCAATCTAATCAATCCCCTAAAGAAGATTTTGTTTCCATTTTAAAATCTACATAATTCTCTTTGTTTATCATCAACCAGGACAAAAGATATTCTCGTTTTCAAGAAGTAATGAGTCTAAATTAAGTGAGTTATTGCTTAAAACAAGCAAAACAATCTGCCAATGGGGTAAGCAAAATTAAATTAGATTAAAATAGTTTAAAGTAAATACTCGTTATTTCTGAAAGCAAGGCTATATTTTTTGCTTGTCTTGAAAATGTTTCTTGATTTAGGAATTTTTTGATATTTGGACTAGAAATAAGACAAAACATCTAAGAAAGAAAAACATTTTTTGCAATGTAATCCTAATGTTACACCACAACTGTTAAATCTGGGCCAATCTGGGTTAAAATATTAATATCATTCATGTTTTCTATATTCATTCATGTGTGTTCTATATAATGTGCCTGGGAATTTTAGACATATGCAAAATACGTTATGATTTAACTGAAGTGGTTGGATTTTAGCCAGCTAAATCTAGAATAGATTTAGTCGACTAAAATCTCATTAAATGTAGTCAACTGAAACTAGACTAAAACTATGATTTGCTGTTAAATAATACGCCTGTGGTATTAATCAGTGGTAAATTGGATAGCACTCAATACACTTCTAAACTAATAGCATCAGCTCGCCACAACTCGCTCTTACTTTCACTTTCAATGAATACAAAAAATCCTAAAATATTACTAAAACTGAATCAAAATTTGCTGTCAAGATGAAAACTGTGTAATAATTTATGTAACTTTAAGACTTGAAATTAAAATAAAGTTTTTTTAGATGTTAGCATCAGTATTGTTAGTTTTTAGGATATCTATAAGCTAGTGTGCACCACAACATTGACAAAATTCACAATATGAAATATAAAACTGATATAAACATGTAAAGCTTAACGTTTATCACTTCTGCCTAAATCCATCAACGCTTATTTTTGCGTCACCTCATACTTCAGTTTCTCATTTAATCTTGACCAATTAAATGCTCTCTAGTATTTAACTTGTCCCGCCCTCTTAAACAGATTTGAAATATCTAAACACCTTTCCATCTATTGCCACAG
Seq C2 exon
GTAAAGCCTCTCCTGCAGGTCACGCGCCAAGAGGAAGAGATGAGCCTGAAAGAGGAGGAGCTCCAGAAGGCCAAAGAATCTGCACAGAAGTTTGAAATCGAGCTAAAAGACATTGCACTGAAGCACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009782:ENSDART00000041142:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0061222=IQ=PD(14.3=8.1)
A:
NA
C2:
PF0157614=Myosin_tail_1=PU(15.6=84.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGAGGCAGCAACAGCTAA
R:
TGTGTGCTTCAGTGCAATGTCT
Band lengths:
230-1429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]