DreINT0100935 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4664464-4664866:+
Coord C1 exon
chr25:4664464-4664632
Coord A exon
chr25:4664633-4664721
Coord C2 exon
chr25:4664722-4664866
Length
89 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGT
5' ss Score
9
3' ss Seq
TATTAATTTATTATTTGTAGGAA
3' ss Score
7.1
Exon sequences
Seq C1 exon
GAGTTGCATTATCCTCTGGAAGGGGGTGAAAAGTTGCCACCCCTCCGAAACCCCGATATCCTGGTGGGTGAAAACGACCTGACGGCTCTCAGTTACCTTCACGAGCCGGCCGTGCTGCATAACCTCAAAGTCCGATTTGTTGAGTCCAAAATCATCTACACGTATTGCG
Seq A exon
GTAGGTTGGATATTGAGTGGGTTTTTGGTCATGAACATGTTTTTTTTTTTACTACATCAAGCTTATATTTATTAATTTATTATTTGTAG
Seq C2 exon
GAATAATTTTGGTGGCTGTCAATCCATATAAGCAGCTTCCCATCTATGGAGATGCAGTCATCCATGCATACTCCGGGCAAAACATGGGCGATCTGGACCCTCATATATTCGCTGTGGCTGAAGAAGCCTACAAACAAATGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=PU(4.9=57.9)
A:
NA
C2:
PF0006316=Myosin_head=FE(33.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGTTACCTTCACGAGCCG
R:
GGTCCAGATCGCCCATGTTTT
Band lengths:
181-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]