DreINT0022329 @ danRer10
Intron Retention
Gene
ENSDARG00000057107 | VAV3 (1 of 3)
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12659]
Coordinates
chr24:29634194-29634905:-
Coord C1 exon
chr24:29634806-29634905
Coord A exon
chr24:29634433-29634805
Coord C2 exon
chr24:29634194-29634432
Length
373 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TGTATGTTTATTGATTTCAGTTG
3' ss Score
5.71
Exon sequences
Seq C1 exon
ATTAGTCCTGTACGGCAAATACTGCAGTCAAGTGGAATCTGCCATTGCATGTCTGGATGACATCTGTAAGAACAGAGAGGACGTCCGGCAGATGCTAGAG
Seq A exon
GTGAGATGTTCAAAAAATGATGTGGTAGTGTTTATTTATTATGAAATTTTAAAACTATATGTTTTTTTTAAGGATATTTTAATTGCTGAGAAAACTATTATAATATAATTCTGAAAATTGAATTATTATTCATAACTTATAATTGAATAATTATAACTGAAATAGATGTGGCCGTGTTTATTTGCTGTGAAGCGCTGCCCCCTGGTGGTTGTGAACAGCACTGTTTTGAAACGTTTATTTATTTTTTTGTAAATGTAAAATAATATATGTATAATATACCAGAAATAAAATGTTTATAGAACTGTTTGTATGTTTATATTTACATCATTTGCTTCTATAAATGTTATATGTGGTGTATGTTTATTGATTTCAG
Seq C2 exon
TTGTGTTCAAAGCGAGCCAATAATGGGAAGTTTACTCTCAGAGACCTGCTGGTTGTCCCGATGCAGAGAGTTTTAAAGTATCACCTGCTTTTACAGGTTTGACATCACTTTCCTTTTATTCCTGCACTTAAACCAGCATAACCTGAGCTCTTAGTTCACGAAAACATGACATTACTATTTTTACAGGCATTTAGATTGATAATAATAATGATAATAATAATAATAAAATCAATAATAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057107:ENSDART00000157192:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0219410=PXA=FE(26.2=100),PF0062115=RhoGEF=FE(22.8=100)
A:
NA
C2:
PF0219410=PXA=PD(5.6=20.6),PF0062115=RhoGEF=PD(22.1=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCCTGTACGGCAAATACTG
R:
TGCCTGTAAAAATAGTAATGTCATGT
Band lengths:
286-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]