GgaINT0126490 @ galGal4
Intron Retention
Gene
ENSGALG00000000993 | GAPVD1
Description
GTPase activating protein and VPS9 domains 1 [Source:HGNC Symbol;Acc:HGNC:23375]
Coordinates
chr17:9612389-9613519:+
Coord C1 exon
chr17:9612389-9612516
Coord A exon
chr17:9612517-9613345
Coord C2 exon
chr17:9613346-9613519
Length
829 bp
Sequences
Splice sites
5' ss Seq
AAGGCAGGT
5' ss Score
2.53
3' ss Seq
TACCTTTTATTTTCATGTAGCCA
3' ss Score
6.59
Exon sequences
Seq C1 exon
AGGTCCTTCAAATCGCTCCAACTCAGTATCATCTTTGGATTTGGAAGGGGAGTCTGTATCAGAGCTCGGTGCAGGTCCGTCTGGGAGCAATGGTGTTGAAGCTCTGCAGCTGCTGGAGCATGAACAAG
Seq A exon
GCAGGTGCAAACTCTCTGAAACAAGTGCCTGTGGTGCTGTGTATGGGAAAGACAAAGTTCTGTGAAAAAAGGTTGAGAAATTAACTAGTTTGGGGCAAAAATAAGTAAATGCTCACCTTGTACAATCAGTTTTGCATTTTTTTTTTTTGCTGCTGTTTTGTTTTCTCTAGAAGTATTTCTTGCAGTTCATAGGAAAAGAAGAGCGTATGGGATTTTGAGACTTAAGTCCTTTGTCAGAAAGTGCATTTACAGTTTTGCTTGATACTTAACTTTCCCTTCAAGGGAATAGGGAGGTCTGGATTGGAGTAGTCTTAGAGCATCTGGCTAGCTTATTTTTAGTATGTATTTGTCAAACACTGGAATGGGTTGCTCAGAGGGGTTTTGGAGTCTCCAGCTTTGTAGATTTTCAAAATGTGACTGGATGTGGCCTTGAGCCAACCTGTAATACACCATGTTCTGTGTAGAGGGGTTGGGATTTCAGTTACCCCTTCCAGCCTCAGCAATTGTGTGAGAAGTTCTTTTTATAGGAATTGTCTTACGTTTCCTGTTAGTGTGTTAGTTTTATCTATTACTTTGTCTATTAGTTTATGTCACCAAATGTATTCGAAGTGTAAGAAAAATCTTGAACTATACTTCGGTGCTTTTAGGCACCATCTCTTGAATAGTATAAGAGTACTTTACAAGTTTTACTTTTAAATGCTATCTCATCTGACAGAGTCAGAGTTTGTGTGGTTTTTTTTTTCCCCCTTCAGTGTACTCCTGTAAATTTTCAATTAGAAGTAGTTGGAGGGGTCTTTCAAAAAACTCTGTACCTTTTATTTTCATGTAG
Seq C2 exon
CCACAACTCAGGATAATCTTGATGACAAGCTCCGTAAATTTGAAATCCGTGATATGATGGGGTTGACTGATGACAGAGATATATCAGAAACTGTGAGTGAAACCTGGAGTACGGATGTCTTGGGTAGTGACTTTGATCCAAATATTGACGAAGATCGTTTACAAGAAATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000993:ENSGALT00000001466:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=0.763
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTCCTTCAAATCGCTCCAAC
R:
CTGCAATTTCTTGTAAACGATCTTCG
Band lengths:
302-1131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]