DreINT0100939 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4689594-4689846:+
Coord C1 exon
chr25:4689594-4689678
Coord A exon
chr25:4689679-4689747
Coord C2 exon
chr25:4689748-4689846
Length
69 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
ATGTTTGATTTCCTCATCAGCCA
3' ss Score
4.55
Exon sequences
Seq C1 exon
GACTTCGAGGAGCAGCTAGACATGAAGGACAGATTAATAAAGCGACTTCAAGACCAAATCAAAGCTCTTCAAACACACGCTGCAG
Seq A exon
GTAAAACTCTCTCCAGTCACCTAATATTACATTCAGCCAATCAGATCTGATGTTTGATTTCCTCATCAG
Seq C2 exon
CCAATCAGAAAGCAGCTCCAGCCGTACCCAAAGAGTACCTGGGCATGCTGGAGTACAAGAAGGAGGATGAAGGCAGGCTGATCCGGATACTCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.172 A=NA C2=0.118
Domain overlap (PFAM):
C1:
PF086146=ATG16=FE(18.5=100)
A:
NA
C2:
PF086146=ATG16=PD(11.3=50.0)
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:
ACTTCGAGGAGCAGCTAGACA
R:
GATCAGCCTGCCTTCATCCTC
Band lengths:
167-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]