DreINT0100913 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4661003-4661569:+
Coord C1 exon
chr25:4661003-4661205
Coord A exon
chr25:4661206-4661458
Coord C2 exon
chr25:4661459-4661569
Length
253 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
GATCGCGTTTTGTATTGTAGTAT
3' ss Score
6.94
Exon sequences
Seq C1 exon
GTTTCGCCGGCGCTCGCAGGTGAGCGAGGAAGTTCCCTTCCCAGCGTCACTTCCAGACTTCTAGCAGGTGCCATGGCCAAAAAGTTAGTCTTATAAATATTAGTTTCGCGTGTAATTATGAGAAAGTGCGTTAAATATGAAATAAATCTGTGTGAAGGGACGCGACTCCTGTTGCCATGGCTTTGTCGGAGTTGTATACAAAG
Seq A exon
GTATGCTTCACTTTCAGAAGTTTTTAGAAAGTTTTTAAACACGATGTTTTATTCTTGCTTGATTAGCCTACATTTTCGAAGATTATAGTGTTGTCAAGCATTTCTGAACGATATTATTGAGTTTAATTTAGTTGCAGCTGTGACATATGGTGTTGGTGTTGTTATTGTTGACAGCGCAGTGTTAGCACAAAAACAAAATATACACACGTCTTTCAAAGCATAATCTCTTATGAGATCGCGTTTTGTATTGTAG
Seq C2 exon
TATAACAGGGTGTGGATCCCTGATGCTGAACATGTCTGGAAATCTGCGGAGATTTTGACAGATTTTAAGCCTGGTGATTCTGAGTTGGAACTACAGCTGGAGGATGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GTGAGCGAGGAAGTTCCCTTC
R:
GTCCCATCCTCCAGCTGTAGT
Band lengths:
294-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]