DreINT0100920 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4677502-4677812:+
Coord C1 exon
chr25:4677502-4677599
Coord A exon
chr25:4677600-4677725
Coord C2 exon
chr25:4677726-4677812
Length
126 bp
Sequences
Splice sites
5' ss Seq
CGAGTAGGT
5' ss Score
5.76
3' ss Seq
GTGTGTGTGTGTGCGTGTAGGTA
3' ss Score
8.95
Exon sequences
Seq C1 exon
TTTCGAAGCTCCTTGTACCTGTTGATGGAGACGCTGAACGCCACGACACCTCATTATGTGCGCTGCATTAAACCCAATGAGGAAAAACTGCCATTCGA
Seq A exon
GTAGGTAACAATACTGAACTATTGAGTCTGTTTGCTTGTATATAGTATATTTATCTCTCTATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTGTGTGTGTGTGTGTGTGCGTGTAG
Seq C2 exon
GTATGACTCCAGGCGTGTGGTTCAGCAGCTGAGGGCCTGCGGTGTGTTGGAAACCATCCGTATCAGCGCTCAAAGTTACCCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:16
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(4.8=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(4.3=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:
CGAAGCTCCTTGTACCTGTTGA
R:
TGGATGGGTAACTTTGAGCGC
Band lengths:
181-307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]