DreINT0173874 @ danRer10
Intron Retention
Gene
ENSDARG00000079564 | vmhc
Description
ventricular myosin heavy chain [Source:ZFIN;Acc:ZDB-GENE-991123-5]
Coordinates
chr2:24610155-24610501:-
Coord C1 exon
chr2:24610383-24610501
Coord A exon
chr2:24610305-24610382
Coord C2 exon
chr2:24610155-24610304
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AACTGCTTCTCTGTGCTCAGGTG
3' ss Score
8.77
Exon sequences
Seq C1 exon
ATGGAGACAAAGTCGCATATCTGATGGGCCTAAACTCTGCTGACCTTATCAAGGGTCTGTGCCACCCAAGAGTCAAAGTAGGAAATGAGTGGGTCACCAAAGGACAAAATGTCCAGCAG
Seq A exon
GTGAGTTGGAGTGTTGTTACCAAAATGGTTTAATGATTCACGTAGTGGCATACCAGATAACTGCTTCTCTGTGCTCAG
Seq C2 exon
GTGTACTACGCTATTGGTGCACTAGCCAAGTCAGTGTATGAAAAGATGTTCCTTTGGATGGTTGTAAGAATCAATCAGTCTCTAGACACCAAACAACCACGCCAATACTTCATTGGAGTGCTGGACATTGCTGGCTTTGAGATCTTTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079564:ENSDART00000099532:13
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=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(5.7=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(7.2=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:
TCTGTGCCACCCAAGAGTCAA
R:
GGCGTGGTTGTTTGGTGTCTA
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]