GgaINT0126484 @ galGal4
Intron Retention
Gene
ENSGALG00000000993 | GAPVD1
Description
GTPase activating protein and VPS9 domains 1 [Source:HGNC Symbol;Acc:HGNC:23375]
Coordinates
chr17:9604812-9606901:+
Coord C1 exon
chr17:9604812-9605655
Coord A exon
chr17:9605656-9606814
Coord C2 exon
chr17:9606815-9606901
Length
1159 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CATAGTTCTTCTCTTTCCAGGTT
3' ss Score
9.94
Exon sequences
Seq C1 exon
TGCGGAAGCTTCTCCTGCTGAATGCTGTCAGCATGCTAAAATCTTGGAGGATACGCAGTTTGTGGATGGACATAAGCAGTTGGGATTTCAGGAGACTGCTTATGGAGAGTTCCTGAACAGATTGAGAGAGAACCCTAGGCTTATCGCGTCCTGTCTGGTTGCCGGAGAGAAGCTCAACCAGGACAACACCCAGAGTGTCATTCACACAGTCTTTACCTCCATTTATGGCAACTGCATCATGCAGGAGGATGAGAGCTACCTCCTGCAGGTCCTTCGTTACTTGATTGAATTTGAACTTAAGGAAAGTGACAACCCTAGGCGGCTGTTGAGACGAGGCACTTGTGCGTTCAGCATCTTATTCAAACTTTTCTCTGAAGGACTTTTTTCTGCAAAACTCTTTCTTACTGCAACTTTACATGAGCCAATCATGCAGCTTCTGGTTGAAGACGAAGATCACCTGGAAACTGATCCAAACAAGTTAATTGAGAGATTCTCTCCAGTCCAACAGGAGAAATTGTTTGGAGAGAAAGGCACAGAAAAATTTAAGCAAAGAGTCCAAGAAATGGTTGACTCCAACGAGGCGAAGCTGGTGACCTTGGTGAACAAATTCATTGGCTATCTCAAACAAAATACATACTGTTTTCCACATAGCTTGCGATGGATCGTGTCACAAATGTACAAAACGCTCTCGTGTGTAGACAGGCTGGAGGTTGGGGAGGTCAGAGCAATGTGCACAGATCTCCTTCTAGCATGTTTCATCTGTCCTGCAATCGTTAATCCAGAACAGTATGGGATAATTTCTGATGCTCCTATAAACGAGGTGGCAAGATTTAATCTGATGCAG
Seq A exon
GTATGACTCATTTTGAACTAGTCTAAGAAAGACATGGAGAGAAATGTTCTCAGTGGGTTTTTTTCTGCTACAACAGGTGGTACTACAATAAAAGGTAAAGAGTATTGTTCGTCCTATATATAAGACAAATGCTAACATAATGCTTGTGTCATTGCTCAGGAGGTGTGTTTTAAAGTTAATGTGTCTGTTTGCTTAAAATATTGACTTTAAAAACACTATAGAATGCATTCCTTTCTCTCTTACAAAAGTGGCAAATATACTGTATGAAAGCTACTCTGAGGAGTGAAAGATGCAGTTATGTTTATGCTTTAAGATGAATTCTGAAGTGTGTATGAAGTAACATTGTACTATGCCAGGTATTTAACAGAATAATGAGATTTTTGCTGACAAAAAATGTTGTCAGGCAGTAGTGGACAGTTTGTCTGCAGATAGCAGCCTCCTGTTTTATTAGACCTTAGGGCATTCCCCAGCCCTCAGGAGAAGTGTTTGTCTCTGTGTAAATATCAAGCAGTTTGATGACAGAATATAGAACTGTTGCCTGATGACATTAAGCATTGTTATATTTAGTGGAGGATATTCCACACACATATAACAGAGCCTGCTCTTAAATGTCTGTGAACTGGACAGTAAGTGATTCCCATGGAAAATTACTGTGGTGAATTTCACTCGCTGCACTTTACTAACAGGGCCTTGCAGTATTTTTCAGAGACACATAACTAATCTTGTCCAGTGTTGCTGCCTGCAGGTTGTAACAGGGCTTGCAATTGGCAACTCTTTAAAACTGAGGGTGGTTTGCAGTTGGTGATTAATAAGGATTATTTTCTCTGGCCTGGAGTTGGGTCTCTTGCTATTTTTTTTTTTCCTCCAACTTTCACTTAATGAAGTATATACAGCCATTCAGAATGTCTAGGTTTGAGATGTGAGAATTGAGAGTTGAATCTAGGTTATGTTGTAAAAAAAAAAAATATGCTTTGTTCCTAGGAAGGAATTATGGATACTCATAGTACACTGTGCATGCAGATTTTCTACTTAAATGCCCCAACTGCTTTTGGTTTTTATTATTTGTAGAATGGAGGAGTTGTCTTAACTGATTGTTATAACAGGGTCCATCTTGATGTTGTTTTGAAATGCTCATTCCTCATAGTTCTTCTCTTTCCAG
Seq C2 exon
GTTGGGAGACTTCTGCAGCAGTTGGCAATGACAGGTTCTGAAGAGGGAGATCCACGTATGAAGAGCAACCTTGCTAAATTTGACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000993:ENSGALT00000001466:2
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=0.069
Domain overlap (PFAM):
C1:
PF0061614=RasGAP=PU(94.6=67.7)
A:
NA
C2:
PF0061614=RasGAP=PD(4.5=31.0)
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:
TGTTTGGAGAGAAAGGCACAGA
R:
ATTGCCAACTGCTGCAGAAGT
Band lengths:
358-1517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]