RnoINT0162661 @ rn6
Intron Retention
Gene
ENSRNOG00000007422 | Vav2
Description
vav guanine nucleotide exchange factor 2 [Source:RGD Symbol;Acc:1306285]
Coordinates
chr3:5843473-5845244:-
Coord C1 exon
chr3:5845146-5845244
Coord A exon
chr3:5843542-5845145
Coord C2 exon
chr3:5843473-5843541
Length
1604 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ACGTAACCTTCTTCCTTCAGAAC
3' ss Score
9.08
Exon sequences
Seq C1 exon
AAAATGGGACTAACCGAGGACGACAAGAGGAGCTGCTGCTTGTTAGAGATTCAGGAGACCGAGGCCAAGTACTACCGCACCCTGGAGGACATTGAGAAG
Seq A exon
GTGAGACCCATTTCTCCTGGAAGCCCAGGGAGTAGAGGGTCTCATCACCCATTCCAGTTCTTTCCTCTGGCTGTCAGGAGACACCCTGACCAAAAGGAGCTTAGAGAAGAGAGGAGTTCATTTTATCCTAACTTGATTACGGTCAGCGGAGGGAATTGGTGCAGGACCTCAAGCAGAAACCATGGAGAAAAGCTGTTTGCTGGCCCCACGCAGGCTCATGCTTAGCTAGATTTCTTGAACAGTCTAGGAACACCTGACCAGGGGCTGGTGCTACTCACAGTGGGCTGGGTCCTCCTGCATCAGTGAATAATCAAGCCAGCCCCCTACAGACATGCCGACAGGACAGTCTGAACTGGGCAGTCCCTCCATTAAAACCCCCTTCTGTGGCTCTAGACCAGCAGGTTTCAACCTGTGGGTCTCGCCCCCTTTGGGGGTCTCAATTCAGATATCCTGCATCATGACAGATATTTACCCTATGATTCATAGCAGTGGCAAAATTACAGTTATGAAGTAGCAGTGACCTAATTTATGGTAGGGGCCACCACCTCATAGCTTGAGAAAGGTCGAGAACCACTGTAAGTGGACACAGCACACTGGGGCAGCAGCCCCTCCACCTTGCCATAATATTCCCACACAAAGGTGTCCCTCCTCTTCTGTGGAAAGGCTCCCAGACTCCCCTGCGTTTCTTCTTGGTGTTTCCATCTAGGCCAACCATGACTGCCGCTCTGTCTTTGAGCATGTGAGGCCAGATCTTGGGCTAAGTTCTCTAAGTCTCCCCTTGCCCCATGGGTAGCCAGGAATGTAGCACATCGGGTGTGATAGGCTATGTGACTAGATGTCACCAAGGCCCTGCCCTGAGTGCTGCCAGTGTCCTACATCCATCTGCCTACCCCCCATCACCATCCAGGAGGCCTTGCTTTTGAATCTCCCTGATGCATCTGTGTCCTTCTGGAAAAAACAGTACCACTGTCAGCTAAAATCCTCTTGGCTGTTCTCTGCTGTGGAGTTTGCCCCAGTGTCTTAGTTAGGGTTTCCACTGCTGTGAACAGGCACCATGACCAAGGCAGCTCTTACAAGGATCACATTTAATTGGGGTGGGCTAACAGGTTCAGAGGTTCAGTCTATTATCATCAAGATGGGAACATGGTGGCACCCAGGCAGGCATGGTGCAGACAGGAAATGGCTGGCTTCCAGGCAGCTAGGATGAGGGTCTTAAAGCTTATTAAGCCCACAGTGACATACTTCCTCCACCAAGGCCAAACCTATTCCAACAAGGCTGCACCTCTAACTAGTGCCACTCCCTGGGTCAAGCACGTTCAAACCAGTGGAGCCACAATGGTGAGTGGAGAGTCTCCAGCCATGGTTCTGGTGTACTTCCCCTCCACCCAGGCTGGCCTAACTGTGACCTCCACAGGGCTGTGTTGTGGGCCTGGGTTCTGGTCTTGGTCCCAGCATGCTTTGCCTGCTGTGCAGTCCCATACCTGTGCACATTGCCTTCTTCATGTGCTGTCCAGTGAGCGCTGAGCCCTCCCTGTGCAGGGCAGCTTTGCTTTGACTGGAACGTGCCCTCCATACTGAGCGGCAACGTAACCTTCTTCCTTCAG
Seq C2 exon
AACTACATGGGTCCCTTGCGGCAGGTGCTGAGCCCCGTGGACATGGCCACCATCTTCATCAACCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007422:ENSRNOT00000009893:6
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=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=PU(11.5=60.6)
A:
NA
C2:
PF0062115=RhoGEF=FE(12.6=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:
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]