DreINT0071430 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34427193-34427551:-
Coord C1 exon
chr8:34427479-34427551
Coord A exon
chr8:34427391-34427478
Coord C2 exon
chr8:34427193-34427390
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
GTTTGTGTGAATCTGCGCAGGTG
3' ss Score
7
Exon sequences
Seq C1 exon
GCTATTCCATGAGCACATTCAGCGACTGTCTAGAGTGGTGTCGGCCAATCATAAAGCTCTGCAGATCCCTGAG
Seq A exon
GTAACCATTGGCTGTTTGTCTTGGATGTATAAGCAATTCTAAATGAAGACAGAAAAGCAGTCTGATGTGTTTGTGTGAATCTGCGCAG
Seq C2 exon
GTGTATCTGAAAGAGGCTCCGTGGCCTTCTGCACAGGCTGAGATCAAGACCATCAACGCCTATAAGACCCCGCGAGATAAAGTGCAGTGTATCTTGCGCATGTGCTCCACCATTATGAACCTGCTCAGCCTGGCCAATGAGGATGCTGTACCCGGCGCGGATGACTTCGTCCCTGTGCTCGTCTTTGTTCTGATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220413=VPS9=PU(56.3=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATGAGCACATTCAGCGAC
R:
ACATGCGCAAGATACACTGCA
Band lengths:
171-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]