DreINT0071438 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34457586-34458240:-
Coord C1 exon
chr8:34458111-34458240
Coord A exon
chr8:34457712-34458110
Coord C2 exon
chr8:34457586-34457711
Length
399 bp
Sequences
Splice sites
5' ss Seq
AGGGTGTGT
5' ss Score
4.51
3' ss Seq
TTTTTATGGTATGTCCGTAGGGC
3' ss Score
9.79
Exon sequences
Seq C1 exon
GTTCTGACTTTGCATCTTGGAGATGGAGGACAAGGTGACGCCCCTGTCGACGACACCAAATTACATGGCAAGCCTGACAAAACACTGCGCTTCTCACTTTGCAGTGACAACCTGGAGGGCATTTCTGAGG
Seq A exon
GTGTGTTTTCATCAGACAACCAGTAGATGGCTCACTTGTACATAATCTGTTTCATGTCCACCTGGCATTTTTCCTTTCTTTTCTCATTCTTTTTTTAAGGTAAAGAGAGAGACAAATACATTTTATATTTAGTTTGATAGTTCAGATTTTATTTTATAATTTCATTTTATTTTTATATATATTTTTAAGATAAATCATTTTGTGTTTTTTTAATTTGATCTTTTTTATTATTTCATTTGCATAAATCGGTTTACTATTCTAGTATTCTAGTTTGTTCTATTCTATTCAGTTGTATTCTATTCTATTTTAGAATAGAAGTTTAATTAGTTTAATTTTAATAGCCTGGTTAGTTTAGTAATATATTTATAAATATGGATTTTTTTTATGGTATGTCCGTAG
Seq C2 exon
GGCCGTCTAACCGCTCAAATTCAGTTTCTTCTTTGGATTTGGAAGTGGAGTCCGTGTCAGAAGGAGGACCAGGACCGTCTGGTAGTAACGGTGCAGAAGCCTTACAGCTACTGGAGCACGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.960 A=NA C2=1.000
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:
GTTCTGACTTTGCATCTTGGAGA
R:
CTCCAGTAGCTGTAAGGCTTCT
Band lengths:
246-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]