DreINT0071433 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34474919-34476972:-
Coord C1 exon
chr8:34476397-34476972
Coord A exon
chr8:34475006-34476396
Coord C2 exon
chr8:34474919-34475005
Length
1391 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
ACTGTTATCTGGTGTTTTAGGTG
3' ss Score
10.1
Exon sequences
Seq C1 exon
GTGCTGCGTTATTTGGTAGAATTTGAGCTAAAGGAAAATGACAACCCTCGTCGGTTGTTACGGCGAGGCACGTGTGCCTTCAGCATCCTCTTCAAACTCTTCTCCGAAGGCCTGTATTCAGCTAAACTTTTCCTCACCGCTACTCTCCACGAGCCCATCATGCAGCTTCTGGTAGAGGACGAGGACCATCTAGAGACAGATCCAGCCAAACTGATAGAGCGCTTTACCCCAGCCCAGCAGGAGCGCCTGTTTGGGGAGAAAGGCACAGACGAGTACCGCAGAAAGGTTCAAGCAGCAGTGGAGGAAAATGAGGCCAAGCTGGTGGCTCTTGTAAACACCTTTATCGGCTACTTGAAGCAGAACACCTACTGCTTCCCACAGAGCCTGCGCTGGATCGTGTCTCAGATGTATAAGACGCTGGCACGAGTGGAGAGGTTGGAGGTTGGGGAGGTGAGGACGATGTGCACAGACTTGCTGCTCACCTGCTTCATCTGTCCAGCCATCGTCAACCCCGAACAGTACGGCATCATCTCAGATGCACCCATCAATGAGGTGGCACGCTTCAACCTCATGCAG
Seq A exon
GTAGAGGATAATGCTGTAATGTTAGTTTTATTATCAGTTATATTACAAATTAGTGCTGGACAAAGATTGAGATATAAAGTATCCAACATAAAGGTTTGCATTTACATAATACAAGTAGTGTGTTTACTGTGTATTCGTTTGGTAAATAAACACACGCACGAATGCATATATTTTAGTAAATGATTATTTATTATATAAAATAGATATGTATATGATACAAATTAATTTTTATAGATACATTTTAATGAATAAAAATAATAATCTATGTAAAACTTTTGTTTTTAATTATGAGTGTGTATTCCCTATATGTAATAAATATTAACATCAATTTTTATTTGGGATACGATTACAGTATTTCCTCTAGAATTTTTTCCAGCTGTGGCTGTAAGCCTTTTTTACACAGATCTACTAACTACCTGTGGCGTTATTTCAATGACAAATGTCTTAAGCGCAGCATTACAAGTCGAGATCGCATTTATGCAATAGCTTACGAGCATGCAAATCTCTTTGCTTGCGCGCCGATTTCCTCTGCTCGTGCACAAAACTTCTTGTAGGCCCCCTCAAATATACGCTGCTCAAGCGCAGATCTTCTTGTGCACTCTTAAATAAATGCTGCTGATGTGCGATTTGGTTGATTTAGTTTATGTAACAAGTATGTCTCCAACATTTATTAGATTTGCTAGGAATATTTATGAATGTCTTCAATAGACCTACAGAGTGGTATAAATGCGTCCTGAAGTAAAGTGAAATGGCTATGAGTCGTGTTTGCTGGACTTGCACATCACGCACCTGTCAGTCAGCCAGTCAGCCAGTCAGTCAGTCTGCACGTTACCTTAAAGGTTCAAACAAATGACGCACAGCACTACTACGGTTACAGAAAAGTTTGCGCTGTTATAATCCACTTACCTTTTAATACGTTTTAGTGCGATTATCACTCGCTGTTAAAAAAAAAAAAAAAAAAACATGACTGAATGTTTTAATTGAAAAGCTGTAATGTAGCCGTTGTGGGATAAATTTTGTCGTTTATATTTGGGATATGGGATAAATATTTGCCATTGTTAATTTTAATACGTTAACTAATATTTACTAATGAGATTTTAGTATAATAATTTGTACTTTATCATCCTTTTGCAATTAGTTTAAAGCATTATTTGCTCTGAACATGTGAATACAATAACACAATACACCAAGTATTTTGGGCTTTTGTTATGCCTGTTAAAGTAATCTTAGATCAACATTGTGATATATTGTATACCAGGATAAAACCTTCTGCAGTTTATCACAAGAAAATTCAACAAGCAAAGCTAATTTTGAGAGAGAATTTTAGACATAATATTGTCCTTTTTTGTTTTGCTCAATATCACACCCTAAACTGTTATCTGGTGTTTTAG
Seq C2 exon
GTGGGGCAGTTGTTGCAGCAGTTAGCAATGTCTGATGCAGATGATGGAGATCCTCGACGTAAAAGCAGTTTATTAAAGTTTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:4
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:
PF0061614=RasGAP=PU(94.6=99.5)
A:
NA
C2:
PF0061614=RasGAP=PD(4.5=31.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGGCACAGACGAGTACCG
R:
TGCTAACTGCTGCAACAACTG
Band lengths:
346-1737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]