DreINT0173540 @ danRer10
Intron Retention
Gene
ENSDARG00000044718 | vav2
Description
vav 2 guanine nucleotide exchange factor [Source:ZFIN;Acc:ZDB-GENE-091204-420]
Coordinates
chr21:17996253-17997130:-
Coord C1 exon
chr21:17997042-17997130
Coord A exon
chr21:17996381-17997041
Coord C2 exon
chr21:17996253-17996380
Length
661 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TGATTCAATGTGTTTTTAAGGTC
3' ss Score
8.48
Exon sequences
Seq C1 exon
GGGTATTTTCTACCAGGGATACTACTGTTCTCTCTGTGGGACAGGCGCACATAAGGAGTGTCTGGAGATCATTACCATCTGCAAAATAA
Seq A exon
GTGAGTGTCTCTCAGAAAGCTGCTTCTCAAAGAAATGCATGTACATTACATCTGCTCTAATTGAAGAGTCCACTGACCGTGCTTTCTCTCTCTCTCTCTCTCTCTTTCATTATTATTTCAGGTCCCCATGATTCGGTGAGTTTTTAGTGGCCTGTACTAATAAACTTTCAGCTCTCAGACTTAATGTCTGATAAATTAATCATTCCCTTTTACTGACTTTTACCAAACTTTACTACATTATTTCATTTTAAACTTTGTCCTCATTTTGGAGAGACACTGTAGGGATGTCTTGCAATATGCCTGATATACTTATATAAAAACGTTAATACACTTTGAAGCGCATTAAATCATAATTTCCCTTGTGCTTTTGACAGGAGCCGGGGCTTCCTCAATCAGGTAAAAAGACAAGTAAAATGTGGTTTTGTAACTTTCTTCTGTGATACTAATGAGGTTATGTCAATATGAAAAATTTAGATCATAAAATGAGATGGACCACACTGAGTGCTCAAAAGCTAATGAAGTTATACTTTAGCTCTCTGCTGCCATCTAGTGTATAGTGCATGCATGCAGTAAACTCAGAGAATGGTTTTAGTTATAGGAATAAGAATTTTAAGATTGCATATGCTTTTTCATCACACATTTGATTCAATGTGTTTTTAAG
Seq C2 exon
GTCCAAAAATGGTGGCCATCCGAAATTACCATGGTACTCCGGCCCCGCCTGGCAAGATACCACTCTGCTTCCAGACAGGAGAAGTCATTGAACTGTTGAAGGGAGATCCAGACACATCATGGTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044718:ENSDART00000143987:14
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=0.115
Domain overlap (PFAM):
C1:
PF0013017=C1_1=FE(57.7=100)
A:
NA
C2:
PF0013017=C1_1=PD(1.9=2.3),PF0765312=SH3_2=PU(65.6=90.9)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATTTTCTACCAGGGATACTACTGT
R:
TCCCACCATGATGTGTCTGGA
Band lengths:
214-875
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]