DreINT0100934 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4686004-4686353:+
Coord C1 exon
chr25:4686004-4686184
Coord A exon
chr25:4686185-4686259
Coord C2 exon
chr25:4686260-4686353
Length
75 bp
Sequences
Splice sites
5' ss Seq
ATGGTATTT
5' ss Score
3.85
3' ss Seq
GATGGACTTTATGTGTGCAGGTG
3' ss Score
6.49
Exon sequences
Seq C1 exon
GGTGATGGAAACTCAACTGCGAGAGCAGAAAGACGCTCACGAGAGTCAACTGGAAGCTCTGATCTTCAAAAATGAGCATTTAAGCAAAGAGAACGAGCAGCTTCAAGCTTTGTTTCAGGAGAAGAGCGACATTAACCAAAGCATTGGACAGGAAGTGACTCGACTCACCGCTGAGAACATG
Seq A exon
GTATTTCTGCATAATATATGTTTATTTGGTTAGTTTAAAATGCCAGAGCAATATTGATGGACTTTATGTGTGCAG
Seq C2 exon
GTGATTCCTGAACTGAAGCAGCAGGTGTCAGAGCTGAACCGCCACAAACACGAGCTGGAGAGCCAGTTACAGGACCAGACTGCTGAGATGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.689 A=NA C2=0.969
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF086146=ATG16=PU(17.9=84.4)
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:
AGAGAACGAGCAGCTTCAAGC
R:
GGTCCTGTAACTGGCTCTCCA
Band lengths:
170-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]