DreINT0071418 @ danRer10
Intron Retention
Gene
ENSDARG00000090183 | gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:ZFIN;Acc:ZDB-GENE-040718-117]
Coordinates
chr8:34444636-34446681:-
Coord C1 exon
chr8:34446559-34446681
Coord A exon
chr8:34444714-34446558
Coord C2 exon
chr8:34444636-34444713
Length
1845 bp
Sequences
Splice sites
5' ss Seq
ATGGTACAA
5' ss Score
2.37
3' ss Seq
TCATTCTTCCACCTCTCTAGGAG
3' ss Score
9.94
Exon sequences
Seq C1 exon
CAGGCATCAGTGCCACGTCGGAGGACATCCCTAATAAGATTGAAGACCTACGCTCGGAATGCAGCTCCGATTTTGGAGGCAAAGACTCCGTGACCAGTCCAGATGGAGAGGACTCTGCTCATG
Seq A exon
GTACAAACGCACACACTCTAATGACTGATGGAGCACACAAATATTGTGCTTTGTATTTAAAGATGCACCAAGGAAAGCTTTACTCTTCACTTAAACTTTAGTGAAATCAATTGTTATTAAGCTATTTTGGCTGTCAAATGATATTAGTTGATTTTAGTTTTATCCAAAACAATCTGTCATATTCCTATTTACATATAAGGTAAAATCGTGGAGCCAATATTTTTTTTTTATTTGTTTACAAGGTTTCATTAAATGAATCTAATTGTGACATTATAAATGTTTAAAATGTTGCAAAATATTAATATTTAAAACAAAGGGCTCTTTCGATCATTTTGTGTCAATTTTTAGCAAAATTTATTTAAGGGTTTCCATCAGATTTAACTTTGCTGTTAGAGGACGGAGTATATAATATATAAAAGTATATTAAAATAGAACAGTTTTTTATGTAATAATCAGGGATGTGATTCAGGGATACGTATTTCCGTATTTTCCAAGCTCAATTAGGGCGACCCCTGTAATTTGCGTAAATCCAAAAGTTTTTTTTGAGGAGGTCTCCGTGACGTTCATCGTCATCAGGGCAGAAAACCTGATTGATGTTTTGCAACTAAATTGTTTATCATTGTGCACAAAAAGAGCATTAACTGCTTCATTCTGGACTGTATTCAGGTATAATGATATTGTGTATCGAATAATTTGTTGCTGACAATATGCAATTATGAAATCACTTTGAATGCATGCGCGACTGTGCACTTCTTCCGCGCTCACATTTGCATGTCACGACCACGTGCACTCTATGTACATTAGAAATAAAGCCAGGACGCACTTTTGTTGTTATCCTCTGCAAGTCATCTGTCCAGATGTCTTCATGCTACAGCTTAGCACCTGAAATTTACCTTACATTGTCATGAAATTGTGTAGATGATAATACCAATTTATAAAAATACATTTAATAATTGGTTAAACCTATAAAAAAGCAGGGACTAGGCCGAAGGGAAAGTGATAAACTCGCAATACATGATATATTTTTCAGGATGGAATGTTAAAGCATATTAGGCTGCTTAATTCAACTGGACTTAATATTTTTACAGTTGAAATTGTTCACTGACTAGCAGTTTATTTATCACGTGGAATAAAGAGCCTCATCTTCTTTTTCTTTTTTTTTGTCTTCAGCTGATCACATGCCTGAATATTGTTTCACAATATTACTATTTTTATTTAAAATTGTGTAAAAACAAAACACATAAATCTTACTGACACCAGACTCGTGAATCATAGCAATTACTTTTTGCAACCATTTAACAATCATATACAGTAGTCATCATTTAAAGTAGATCAAAAAAGTTTCTCAAAATAGACGAGAATGGGTGTTGTTGATTAGTTTAGGACAACTTTGACTAAAGTTCTCAATTTTTCATATTGCACATCATAATTTTTTATTCAAATCATTAACAAATTTACAAGTCAGTGTAGAATTGAATGTGTCTTTCAGTGACTATAGCATTTAATGCAATTATTATTACCTTTAATATAATATTTCTAAATGTTTTTAAGTGAAAATAGGTGTCAAAAAGCATAATGCTGAAATGTCAGTTGTTTAAACACAATATCTTGTGAAACAAATGTAATAACTTGGTGCATCTTAAAGATAAAATTGTAAATTCTAATATATTCCAATGCATCTCTAAAGGTGAAAATCAAACATTTGATCTCATTTTTTTCATTATTAAATGTCATCCTGCACCGCTGTTGATCTTGTTTCTTGGTTTGTGTAATGTGGGACTAACAATCCTTTATCACTCATTTATTCATCCCTTTATCCATCCCTTCATTCTTCCACCTCTCTAG
Seq C2 exon
GAGCTCACAGTCTCTCCTGTGCACCTTCTCAAACAGATTCACTGCTGGCCATGTTCGATCCCCTCTCCTCTGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090183:ENSDART00000161282:14
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=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:
CATCAGTGCCACGTCGGAG
R:
CAGAGGAGAGGGGATCGAACA
Band lengths:
191-2036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]