DreINT0100940 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4689748-4690277:+
Coord C1 exon
chr25:4689748-4689846
Coord A exon
chr25:4689847-4690122
Coord C2 exon
chr25:4690123-4690277
Length
276 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAAT
5' ss Score
4.69
3' ss Seq
GATTGTTTTGTGCTGTTCAGAGC
3' ss Score
6.29
Exon sequences
Seq C1 exon
CCAATCAGAAAGCAGCTCCAGCCGTACCCAAAGAGTACCTGGGCATGCTGGAGTACAAGAAGGAGGATGAAGGCAGGCTGATCCGGATACTCATCCTGG
Seq A exon
GTAAATAAATGACTGTCAATTTCTTTTTCTGTTTCAAATATTTCCCAAATAATGATTAACAGAGCAAAGAATTTTTCGCAGCATTTCCTATATTATCTTTTCTTCTGGAGAAAGTCTTATTTGTTTCATTTTGGCTAGAATAAAAGCAGTTTTTATATAAAAAAACCTTTTAGGGTCTTAATTATTAACTATTATTAATATTTTTTTGTATATATTACTGTACTGTATATATTAAAGTGGAAGGATCATAATTGATGATTGTTTTGTGCTGTTCAG
Seq C2 exon
AGCTGAAGCCTCGCGGTGTGGGTGTGAATATGATCCCTGGTTTGGCTGCTCATCTGCTCTTCATGTGTGTGAGACACGCAGATTATCTGAATGACGGAAACAAACTCAAGTGCCTCATGAACAACATTATAACAGCCGTCAAAGAGGTCATCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF086146=ATG16=PD(11.3=50.0)
A:
NA
C2:
NO
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:
AATCAGAAAGCAGCTCCAGCC
R:
CGTGATGACCTCTTTGACGGC
Band lengths:
252-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]