Special

RnoINT0162648 @ rn6

Intron Retention

Gene
Description
vav guanine nucleotide exchange factor 2 [Source:RGD Symbol;Acc:1306285]
Coordinates
chr3:5825493-5826426:-
Coord C1 exon
chr3:5826405-5826426
Coord A exon
chr3:5825621-5826404
Coord C2 exon
chr3:5825493-5825620
Length
784 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
GCCATTTTCTTCTATCTTAGGTC
3' ss Score
10.21
Exon sequences
Seq C1 exon
GACGCTCCCGGAGCAGGACTAG
Seq A exon
GTGAGTGTGCTGGACCCAGCCACTTCTGCCTTCTTCAGCCACCCAACGAGCTGTGTGTGTGAGTGGTGGCGACTGAGCACAGCCGTTGTCTGCCCTAGCCTCTCTGGCTGCCTCCCAGGGTTGACTTAGGGCTGGCTTTCAGAGGACCAAGGGCTTTCTGTCCACAGCTCCTAGAGGTGCCAAGCTTAGGACCAAGACCTGTGTGATCAGGAAGCCCAGGGGTTTTTGACCTTTTTTTGTGCCCCTGGATGCTACCCAGGCTGTTTAAACATTCTGGATGAAACCTGAACTTCCTCAGAGGAAACTCAAACCCCACCCAGGTGTTACCACTATTGGGCCATATCGACCTAGGCCAGGCCTGGAAAGACAGTTTGGTGACCTCTTTGAACATTTGGGGTGAGACCGGGACCCCATCTGAGGGTAGCCTCAGATTCTTGGGTACTCAGCTATATCTATCTCCATTGCAAACCCAGGCCTGCCTCTCATCCCTAACATGGCGGGGGCCCTCCCTAGCTCCACACCTCAGATCCAGCTCAGTGGTGTCTGGGAGAGACATAAAATTCCATCTAAAAATAAGTAGCTGTTACTGGAATGTTCTGCCATCTGTTTTAATTCAGTAGATGTAGGAGCCAGGGGAGGATACAGAAAGGGCGATACAGGCCCTCGTGTCTCTCTGTGTTGGGGAACAGTTTCATGAAGGGTTCCCCAGATCAGGGAGGGTTGGTGATGGGAGGAGCCGCCAGCAAGGACGAAGTCACCCGTGAGCCATTTTCTTCTATCTTAG
Seq C2 exon
GTCCCAAGATGGTTGCCGTGCAGAATTACCATGGTAACCCAGCCCCTCCCGGGAAGCCCGTGTTGACCTTCCAGACAGGGGATGTGATAGAGCTGCTCCGGGGTGACCCCGATTCTCCTTGGTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007422:ENSRNOT00000009893:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.500 A=NA C2=0.372
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0765312=SH3_2=PU(65.6=93.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]