RnoINT0162633 @ rn6
Intron Retention
Gene
ENSRNOG00000050430 | Vav1
Description
vav guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:3951]
Coordinates
chr9:9645339-9645796:-
Coord C1 exon
chr9:9645728-9645796
Coord A exon
chr9:9645448-9645727
Coord C2 exon
chr9:9645339-9645447
Length
280 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
GGCCTGAATCTGTCCCTCAGTGA
3' ss Score
5.77
Exon sequences
Seq C1 exon
GCCCTTCCCAACAGAGGACAGCGCCCTGGGTGATGAAGATATTTACAGTGGCCTTTCAGACCAGATTGA
Seq A exon
GTGAGTACTAGGACCCGATAGGTGCAGGTTTGTGAGACACAGTGGAGACCGGAGCCTGAGAGACACGAATCGGTTCTGTGGTCTGAGGGACACAAATCTGTCCCATGGTCTCAGGACATGAATCTGTCCTAGGGTCTGAGGGAACACGGATCTGTCCTGGAATTTAAGGGGACATATCGCAAGACTGGGGAGAGGGTGGCTGACATTTTGGATTCATCCTTGATTCTGAAAGTTTCTGATGGGTCCTTGGCTTGGGGTGTGGCCTGAATCTGTCCCTCAG
Seq C2 exon
TGACACCGCAGAGGAAGATGAGGACCTTTATGACTGCGTGGAGAATGAGGAGGCAGAGGGGGACGAGATCTACGAGGACCTAATGCGCTCGGAGTCGGTGCCCACACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050430:ENSRNOT00000073294:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.486
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTTCCCAACAGAGGACAGC
R:
GACTCCGAGCGCATTAGGTC
Band lengths:
164-444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]