RnoINT0162653 @ rn6
Intron Retention
Gene
ENSRNOG00000007422 | Vav2
Description
vav guanine nucleotide exchange factor 2 [Source:RGD Symbol;Acc:1306285]
Coordinates
chr3:5818576-5820587:-
Coord C1 exon
chr3:5820471-5820587
Coord A exon
chr3:5818664-5820470
Coord C2 exon
chr3:5818576-5818663
Length
1807 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
CTGTGTGTGTGTCCATCCAGGTT
3' ss Score
10.86
Exon sequences
Seq C1 exon
GTTCGCTGGCAACATGGAACGGCAGCAGACGGACAATCTACTCAAGTCTCATGCCAGCGGGACCTACCTCATCAGAGAGCGCCCAGCAGAGGCAGAGCGTTTCGCCATCAGCATCAA
Seq A exon
GTGAGCGGCGGCCCCAGCCTCACGAGTGTCTCCCCCAAGCCTGCTGTTGAGGGGATGGAGTGGGTCTTCCCTCTCATACCCAGGCTAGAAGAGCTCAGACAAGATGGCGGCAGAGGCCTCCTCACGTGTGCTCCATGGCCAGGTCACCCAGCTAAGGTCTGGGTTGTGCGTTTTCAGAGACAGGTGGGCTGGTGGGACACAGGGAAGTGACATCAGGGACGTACTGGCCGACTGGTGAGTCTTAGTCAGGATGTACCCATGCACTGCTTTGTGGCATCTAGGGACTCTCAGAGACCTTTAGCAGTGCCTCTGGCAGCCATGTAGCTTGGGCTACAGGTCCATGGTCTGTGCATCTTTCCTCAGATAAAAAACAAACAAGACCCAGCTGTTTGTTTTCCTCAGCCCAGGACACCCATGCACGCGTCTTAGACCTGTTACTAGGTGTTTGATTTGCTATGAGTCAGTGGGGTTCTGAGAGTCCTGAGCAGGGCACCTGTGTGTGGGAAAGGGCATCTTTGGTCTTCTGGGAAATGAGGGAGGCAAACCTTCTGATCTGGCCTCTTGGTGATAGCTATAGTGAGACAGACCGGACGCTCCTGCTGCAGCGACCGGAGCTGGGAAGGGATGCCGGTGGCTGCAGGAGTGCCTCGTGGCTTCCTGGGCAGGTGTGCACTGGGCTCTGCAGGGCAGCCACAGGACCTGAGCACACTACTTTCTCCTCTTCCTTTGGGGCATGTTTTTTCTACTTCTGCACTGGGTTGGGGTTCAAAGCTTGCCTATCACAAGCATCCTAGGCCACACAGTCTAGCTCAGGCAGGTACACACAGCCGGAACATGCATCTGACACCTGAGGAATATCATAGGCGGATACCGCCGTAGCACCTGCGGCCAGGGTCCTGCTCTACAAGACTCCCAAGGGTGATGGGGGTGGAGACAAGAATTAGTGGAGCTAGAAGGGGCTAGAGCAGGGTGAGAGGTCCCTGGGTCTCCCTACTTCAGAAAGGTCACACTGCCAGGAGCCATCACTTTTCCAAAAGGTCCTATGATGTTGAGGGTCTAAAGAAATCATAGCCTATATCCAGCCCCACACAATGATGTGACAGCCGTTACACCCACCTCTTAGGAGTGTCCACAGTGCCTTGTGTCTGCCAAGACTTTAGGACACCACTGTGGGAATCCTGTCGGTCTGGCTCACAGCACATGCTAAAGCCATGTGAACACAGGTAGGTAGGTGCCTACAGTGGCCCTGTGGAGTGACGTTTGATTACCCATTAGTTCCCTGTTTCCTTTAGCCAACTTCAGGGTGTCGAACCAACCTTGCATTCCTCGAATGTCTCCCCACCCCTCAGCACTGTCCAGTCCTTGTTACATGTTTGGGTCATGTGCAGACATATTTAGGGACATAGGTTCTCTTGCTTCATCGACTGGGTTCCTACACCCACAGGCATCAGGACACTGGCTTGAGATTTCCGTCTGTGTGACAGCCTTAACCTTGGTGCTGCCTTACATGGGCTGGGCTGGCATTTGGAGAGGCCTCTCTAGGTTGGATGCATTTGAACTAAAGATGATGGTGGGTGAGGGTCAGGGCAGCTGGCTCCGGGACCTGCTGGACTTGTGCTCCATTCTTTTGGATCTGCGTAGAGGGGTTGGGGGCTGAGGTCAGGGCGGATAGTGGAGAGTCTGGGGTATGGACTTAAAGCCGGCAGGGAGAGCTATGGAAGATCTGGCTGGGAGGGGCTGGTTTAGGTCAGGATCTTTGCTGAAGCAGATCTGGAATAAGCCTGGGGCTGTGTGTGTGTCCATCCAG
Seq C2 exon
GTTCAATGATGAAGTGAAACACATCAAGGTGGTGGAAAAAGACAGCTGGATCCACATCACGGAAGCTAAGAAGTTTGAGAGCCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007422:ENSRNOT00000009893:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(52.0=97.5)
A:
NA
C2:
PF0001719=SH2=FE(38.7=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:
TGGCAACATGGAACGGCAG
R:
AGGAGGCTCTCAAACTTCTTAGC
Band lengths:
198-2005
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]