GgaINT0126499 @ galGal3
Intron Retention
Gene
ENSGALG00000000993 | GAPVD1
Description
NA
Coordinates
chr17:10339829-10340568:+
Coord C1 exon
chr17:10339829-10339951
Coord A exon
chr17:10339952-10340438
Coord C2 exon
chr17:10340439-10340568
Length
487 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GTCTCTTTTCTTGTCCATAGAGA
3' ss Score
10.53
Exon sequences
Seq C1 exon
ATGATCCAAGCCCGAGGCTCAGTGCGCAGGCTCAAGCTGCTGAAGATATTCTGGACAAATACAGGAATGCAATTAAGCGAACCAGTCCTAGTGAAGGAGCTTTAGTAAACTATGACAGTGGAG
Seq A exon
GTGAGAACCTGACTTTTATAGTCCTCACCAACATAGTTTCTCCCTCTTAAAGATAAAAAAAAAAAAAAAAAAAAAAAAAAAACACACCTCAGTGTTCTAGACAAACATAGTGCTGACAGCGTAACAATGTGAGCTGTAAAGCAAATGTTTTCTCTTACAACCTGTGGTGTAGCCCTTCTGAGACTGGGAATGAAATCCATATTCCCAAAAAGAGGTCATCTGTGTTGCCACTGAGGTGGTGATTTTTTTACTGGCACATCTCTTACCAGTTCGCTATTTTTTAAAATGGAAACTGAAGAAGTGCATTGCTTTTGAAAACTGATGTGATTTCTTCTTAGGGACTTGCAGATGGCATATTTTAATATGCCCTTTCAATTTAAACAAATTATCTTACTCTATTTTTTTTCTCTTATACTGACAAGAACAAAACAGAAGATAGTAGTCTAGGTTCTTCTGACTCCACAAGTGTCTCTTTTCTTGTCCATAG
Seq C2 exon
AGACTACAGGAGATGGTGAGAGCGTGCATGACTCTCCACGTGATGAGGCTTTGCAAAACATGTCTGCAGATGATCTCCCAGACTCTGCAAGTCAAGTAGCTCAGCCACAAAGTTCTGCTTTCTCATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000993:ENSGALT00000001466:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.992 A=NA C2=0.909
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGTGCGCAGGCTCAAG
R:
GCAGAACTTTGTGGCTGAGCT
Band lengths:
224-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]