GgaINT0039980 @ galGal4
Intron Retention
Gene
ENSGALG00000001915 | VAV3
Description
guanine nucleotide exchange factor VAV3 [Source:RefSeq peptide;Acc:NP_996745]
Coordinates
chr8:1063400-1063969:-
Coord C1 exon
chr8:1063884-1063969
Coord A exon
chr8:1063533-1063883
Coord C2 exon
chr8:1063400-1063532
Length
351 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTTACCTTGCATTTTCATAGGCA
3' ss Score
8.35
Exon sequences
Seq C1 exon
AACCATTCTCTCTTACAGTATGGAAGACCTCAGGGTGATGGGGAGATAAGAATAACTACGTTAGACAAACGTGCAAGGCAAGACAG
Seq A exon
GTGATGTCATGACTTCTGGTGTTTGCTATTAAAATGCCTATGAAGTAACTCTCTCTTTGCATACTTGAGGTCAGTTCAGTGATTCTTGAGAGCACTTGAATTTCAATATGCGTTCTTAGAGACATTCACTGTTTAGCAAGTGAATTTGCCAAGAAGCTATCTATGGGAAATTAGCTATTTCATAATCATGTAAGATAATCTACGTCACTAGCAAGAGTACTTTCAGTGTTTCTTGTTCTGTTATTTAGTAGTTAATTCATTTAAAGTTTTAAGTGCCACACGCGAAGGTTTATAAGATGAGACTTGGTGTGCTGGAATGTTTTTAACCCTCTTTACCTTGCATTTTCATAG
Seq C2 exon
GCATATCTTTTTGTTTGATCTGGCTGTAATTGTTTGCAAGCGGAGAGGTGATAATTACGAAATGAAGGAAATAATAGATCTTCAGAAATACAAAATTACTAATAACCCCACTACTGATAAAGAAAATAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001915:ENSGALT00000002946:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0063014=Filamin=FE(8.0=100),PF0016924=PH=PU(18.6=65.5)
A:
NA
C2:
PF0063014=Filamin=FE(12.6=100),PF0016924=PH=FE(43.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATTCTCTCTTACAGTATGGAAGA
R:
TCTTTATCAGTAGTGGGGTTATTAGT
Band lengths:
208-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]