DreINT0100937 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4688096-4688410:+
Coord C1 exon
chr25:4688096-4688159
Coord A exon
chr25:4688160-4688241
Coord C2 exon
chr25:4688242-4688410
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGCTGTGCTTCTGCTCACAGACG
3' ss Score
9.65
Exon sequences
Seq C1 exon
CGAAACTGAAGGAGTTATCGAGTGCGCTCCATCTGGCTGTTGAAGAGGAGCAGTCTCAGCGCAG
Seq A exon
GTGAGCGTTTGTTACACTGTTTTTCGGCTGCAGACGGTGTGTCTCGAGGCTGAAGCTGCATCTGCTGTGCTTCTGCTCACAG
Seq C2 exon
ACGCCTGCAGGAGGAGCTGACAGAGAGCCAGAGGAGGAGAGAGGAGACGGACAGACAGATCTCTGAGCTCCAGGAGGAGAACCAGCAGCTAAAGAAAGCTCAGATCACAGAGAGCCAAGCCAAAAACACACTCCGACTGGAGACTTCACGCCTCACCGCTGAGAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.947
Domain overlap (PFAM):
C1:
PF086146=ATG16=FE(13.9=100)
A:
NA
C2:
PF086146=ATG16=FE(37.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCTGTTGAAGAGGAGCAG
R:
CGGAGTGTGTTTTTGGCTTGG
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]