DreINT0173896 @ danRer10
Intron Retention
Gene
ENSDARG00000079564 | vmhc
Description
ventricular myosin heavy chain [Source:ZFIN;Acc:ZDB-GENE-991123-5]
Coordinates
chr2:24602227-24602712:-
Coord C1 exon
chr2:24602608-24602712
Coord A exon
chr2:24602323-24602607
Coord C2 exon
chr2:24602227-24602322
Length
285 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTCTATATTTTCTTTTGAAGACT
3' ss Score
7.72
Exon sequences
Seq C1 exon
GTGAGGGAGCTGGAGAGTGAAGTTGAATCAGAACAGAAGAAGAGCAGTGAGGCGGTGAAAGGAATCCGCAAATATGAGAGACGTATAAAAGAACTGACGTATCAG
Seq A exon
GTAAGGCAAAAATCAAAACACACATTGAGTTGTTATTACAAAGTACAAATTACTAACTAAAGAACTAACAGGAACTAACATTATTTAATTTAAATAATGTTAACAAAGATAAATAAATACCATAATAGACGTGTTAATCATTTTTTGTTCATATTATTAAATACATTAACTCACATTAACTAATGGACCATTATTTTATTATGTTACCTACATATTGAAAGTGTAACGACTCGACACTTTCCCACATGAAATTCTCATCTGCGTTTTCTATATTTTCTTTTGAAG
Seq C2 exon
ACTGAGGAGGACCGCAAGAATCTGGCTCGTCTGCAAGATCTGGTTGACAAGCTTCAGCTAAAGGTTAAAGCTTACAAGAGGGCTGCAGAGGAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079564:ENSDART00000099532:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.686 A=NA C2=0.312
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(4.0=100),PF0026115=Tropomyosin=PD(32.8=60.0)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(3.6=100)
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:
GAGGGAGCTGGAGAGTGAAGT
R:
TTCCTCTGCAGCCCTCTTGTA
Band lengths:
196-481
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]