DreINT0071414 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34457309-34457711:-
Coord C1 exon
chr8:34457586-34457711
Coord A exon
chr8:34457480-34457585
Coord C2 exon
chr8:34457309-34457479
Length
106 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTGTGTTGTCTGTTATGTAGCCA
3' ss Score
5.58
Exon sequences
Seq C1 exon
GGCCGTCTAACCGCTCAAATTCAGTTTCTTCTTTGGATTTGGAAGTGGAGTCCGTGTCAGAAGGAGGACCAGGACCGTCTGGTAGTAACGGTGCAGAAGCCTTACAGCTACTGGAGCACGAACAAG
Seq A exon
GTGAGTTTGTGTCTTCGAGTATTTCACCAAACATCTTAAGAGAAAAACTTTACAATTAAACTGGTGTTGCTTGACACTCACATACTCTGTGTTGTCTGTTATGTAG
Seq C2 exon
CCACTACACAGGATAATTTGGACGATAAACTGCGCAAGTTTGAGATTCGGGACATGATGGGCCTGACGGATGACCGAGACATTTCTGAGACGGTCAGTGAGACTTGGAGCACTGATGTCTTGGGGAGTGACTTTGACCCCAACATGGATGAGGACCGACTGCAGGAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.862
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGTCTAACCGCTCAAATT
R:
CACTCCCCAAGACATCAGTGC
Band lengths:
255-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]