DreINT0022327 @ danRer10
Intron Retention
Gene
ENSDARG00000057107 | VAV3 (1 of 3)
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12659]
Coordinates
chr24:29634979-29635236:-
Coord C1 exon
chr24:29635168-29635236
Coord A exon
chr24:29635083-29635167
Coord C2 exon
chr24:29634979-29635082
Length
85 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CATATTCTTCATCACATCAGGAT
3' ss Score
5.79
Exon sequences
Seq C1 exon
TTCTTTATGAAGCCTCTGGGACAGTCGCTGTCCAGCGTGGAGATCGAAAAAGTGTTCATCAACATACCA
Seq A exon
GTGAGTTTATGAAGCACAGGCTTTAGCATAAATCCAGCGTATTAGTCCTCGTCGCTTCATATTTTCATATTCTTCATCACATCAG
Seq C2 exon
GATCTTGTGAAAGTGCACACGAGTCTCCTGAGGGAAGTGCAGGATTCAGTGCTCATGCACAACGCCACAAACCTCTACCAGATCTTCATCAAATACAAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057107:ENSDART00000157192:6
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=0.000
Domain overlap (PFAM):
C1:
PF060426=DUF925=FE(17.2=100),PF0219410=PXA=FE(17.5=100),PF0062115=RhoGEF=FE(15.2=100)
A:
NA
C2:
PF060426=DUF925=PD(20.3=74.3),PF0219410=PXA=FE(27.0=100),PF0062115=RhoGEF=FE(23.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTATGAAGCCTCTGGGACA
R:
TTCTTTGTATTTGATGAAGATCTGGT
Band lengths:
170-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]