DreINT0071422 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34435940-34436627:-
Coord C1 exon
chr8:34436556-34436627
Coord A exon
chr8:34436072-34436555
Coord C2 exon
chr8:34435940-34436071
Length
484 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGC
5' ss Score
5.38
3' ss Seq
TCTTATTTATTGTGTGTCAGATG
3' ss Score
8.49
Exon sequences
Seq C1 exon
TGCCGATTGCCGGGCTTCGGAAGCGGGACAAGGCAGAAAAAGACGAGCAAGGAGCAGAGAGGGTCCCACAAG
Seq A exon
GTCTGCTCCCAATTAACTCTGTCATACACTCACTAAAACAGTGGTCACCGAACTTGTTCCTGGAGGGCCGGTGTCCTGCAGATTTTAACTCCAACCCTAATCAAACACACCTCAACAAGCTAATCAAGGTCTTACTAGGTATACTTGAAACATCCAGGCAGGTGTGTTGAAGCAAGTTGGAGCTAAAACCTGCAAGGACACCGGCCCTCCAGGAAAAAAAATTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATTATATAAATAATGTAATTTTCATCTATTAAGCAGTGACATAAATTTGTCTTAGGTTAGGCACAACTATATTCAATACAAAGAAACACACAATCAACAACGAAGAACACACTTAGTCCTATGATGCACCTTTAGAAATATCAGATCTAAAGCACAAGATCCTGCTTGACCTAATTGAATTCTTATTTATTGTGTGTCAG
Seq C2 exon
ATGAGCCTTCACTGCTCAGACAGAGCTCCAAAACCCAGTCAGCAGAGGCAATTATGGACAAGTACATCAGGTACATGGAGAAACGACCCGCACAGGCTGACGGAGCAACTGCTGGAGGTTATGTTGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.990 A=NA C2=0.961
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCGGAAGCGGGACAAGG
R:
CTTGTCCAACATAACCTCCAGCA
Band lengths:
190-674
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]