RnoINT0162656 @ rn6
Intron Retention
Gene
ENSRNOG00000007422 | Vav2
Description
vav guanine nucleotide exchange factor 2 [Source:RGD Symbol;Acc:1306285]
Coordinates
chr3:5815888-5816845:-
Coord C1 exon
chr3:5816759-5816845
Coord A exon
chr3:5816043-5816758
Coord C2 exon
chr3:5815888-5816042
Length
716 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
CACCCTGTCTTCCCCAACAGTGT
3' ss Score
10.52
Exon sequences
Seq C1 exon
CTTCGTGTGCTTCCTACAGCTTTTCTTTTCTCAGTCCTCAGGGCCTCAGCTTTGCCCCCCAGGGCCCCTCTGCTCCCTTCTGGTCAG
Seq A exon
GTACTTCTACTGCTCAGAGCCCAGCCTGACCAGTCCCCCGACCGTGCAGCCTGGTGCTGGTGCTGGGGGTGGGGGTGGGGGGATCGGGCCGAGGCTGCTGCACACGAGGACGCGGTAGGCAGGGCTCTTCCCTGGTCACACTGGTGGACACGTCCCTGCCTTGTCAGCTGTCATCCTTCATGGCCGTCGAGAGCTTTGCCTCTGGTTTGGGAGATGGGGGCAGGAGGGGCGGATCTGGTGACTACTCTGCAGCCATGACGGCTGCTGTGGGAACAGGGATGGGTGTGGAGGAGAGGGTTTCAGTCAGCCCTGGTCCGACATGCTTTCTGTTGCCAGAGCCAAAGCCCTTCTGTTCGAGTCTGTGTGTCCCCTCACTACCATTGTCACCTGTCCCCATGACTCCTGGGTTCCGGACTGAACCAGTTCACTGGGTTTCCAGTCTACTTTGGGGAATCTGGGATGGGGGATGGTCAAGGCATGGGTGCCTGCTCTGTTTACCAGTGGCTTGCTTGTTGCTTGTGATTTCAGCCCAGGATTGGTGCATGCATAACCGTGTCATATGCCTCAGCTGGAGGCTAGTGTCCCTCCAGAGACCTTTCCTAGCTCTGGGCATAAAGCCCTACTCTAGGCAGGGGCCCAGCTCAGCCTGAGGGCCTCTAGCCCTGGCTGATCAGCTCCTACAGATCTCTGACGTCTCACCCTGTCTTCCCCAACAG
Seq C2 exon
TGTTCACACCGCGGGTCATCGGCACAGCCGTGGCCAGGTACAACTTTGCTGCACGAGACATGCGGGAGCTGTCGCTGCGGGAAGGTGATGTGGTGAAGATCTACAGCCGGATCGGTGGGGACCAGGGCTGGTGGAAGGGCGAGACGAACGGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007422:ENSRNOT00000009893:26
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=0.005
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0765312=SH3_2=PU(76.4=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCGTGTGCTTCCTACAGCT
R:
CCGTTCGTCTCGCCCTTC
Band lengths:
238-954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]