RnoINT0162630 @ rn6
Intron Retention
Gene
ENSRNOG00000050430 | Vav1
Description
vav guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:3951]
Coordinates
chr9:9620839-9623253:-
Coord C1 exon
chr9:9623139-9623253
Coord A exon
chr9:9620991-9623138
Coord C2 exon
chr9:9620839-9620990
Length
2148 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGA
5' ss Score
7.22
3' ss Seq
GGTCTCTTTCCATTCCACAGTTG
3' ss Score
7.64
Exon sequences
Seq C1 exon
GAACTGGTAGAGTTTTATCAGCAGAATTCCCTAAAAGATTGCTTCAAGTCGTTGGACACCACCTTGCAGTTTCCTTACAAGGAACCTGAGAGGAGAGCCATCAACAAGCCGCCGG
Seq A exon
GTAGGAGGCTGGAGGCTGCACAATGCCTCCTCTTGGTGGAGGGGGAGCCTGAGTTTCCGCCTGGCACCTTTCCTTTTAATGATTCTTTATTCAAGATGCCTTTTTTTGTGCATTGTGTGATGTTGGAGATGACTTTTTGTTTGTTTAAAGATTTTATTTATATGTGATGCTGTGTGTGTATATCTCTGTGTGCTTTTCACACTAAGTGCAGTATCTGGCAGTGGCCCAGAAAAAGGCAGCTAGTCCTGACCTGTGCAGCTTGTCCAGTGTGGGTGCTGCGGAACTGAACCTAGGTCTTCTGAGAGCCTGTAGTTTTTTGTTTTTTGTGTTTTTGTTTTTGTTTTTGTTTTTAGTTTTTGTTTTGCTTCCTTCCCTCGTTTTATATTTCTTTTTGACGCCAGGGTTTCTCTGTGTAGTCTTGGCCGTTGGCAACTATGTAAAAGTTTGCTCTAGAGAATCTGGGCAGCTTTTGAACCCAGAAATCACCGCATCTTGCCTTCCAGTGCTGTGCATCTTCCTTGCCCTGAGTGCGAGCCAGCACTTGCGCCTTGTGGCCAGCACTGCGTTGGAACGTTCACCGATGGCCTCGGTGGAGCACAGGCTATCTCACGTCAGTTTGTTTCTCACCAACCCAGCTGTGTCGCCAGCCTCTGCCTCTTCACAGTGCACAAACAAAGGGAACACATCCCTGGCCAAAGTTAAACACAGCCCAGAAAAATGCATGTAGTTGCACAGTCTCGTGGTTGAACCACAAGCAACCGGAGAGATCAGCAGATAGGCCGGTGACGAGAGGCCAGTGCAGCCAGGCACGGCATCAGCTGTGGGCTCCACTGTGCAGCTTCTGCTCCTCCTCCTGGGCTAGGATGCAGCTCTGGGATCACAGCCACTCACACTGTCGTGGGCTTTCTCAAAGGAAAGGCACAGTCCCACTGGCACTTGGGTTTCTTACTGGCTCTATAGAGTAACCGTGTGAGTCACCATTTCCCAAGGAGCAAGAGCAACAGTGGATTTTGTGTCCCCAAGCCCACCTCTCTTCATAGTGCACAAACCACTCAGCTTCTTCTATCTCTGCACTTCGCTTCCTGCTGTGCCTGCCCCAGCGAGGCCTGCAGTGTTCTCTCTCTGTGCCTCCCAGACTGCATCTGGGCCAATTCAATGGAATCTGGATGGAACTCTAGAGACCGGAGGCTGCCATAGCCACCGCCCTTCTCCCTAACAATGCTTGTCTCGGTGCCACCGACACCGAGCCTTATTTTGAATTTTAAACTGTGTACATACATGTGTGTCTGTGTAAGGCTCTGTGCACTGAGTGCACTGTTTACAGAATACAGAGGAGAGTGTTAAATCTCCTGGAAATGGAGCTATAAGTGGTTGGCAGTCTCCATGTGGGTGCTGGAATTGAATCACCTTTCTAGCCACCTGTAATGACTTTTTAAGTCTCCCTGTGAATCTGGACTGAAATATGCTGTCTAGGGACTCACAGATATAAAGAAATTGAGTGCACACAAAACACTATTAAAATTATAGGAGAGCCGGTTTAGCAGGTGTGGTGGTTCATGTTTATAATCCCAGCACTGGATGACAAGTCGAACCACACTGGGCTACTTCATGAAACCCCACTTAAACCATTTACATTTCCTAAACGTGGGTACTCAGGCTGGGAGGACAACGTTAGAAGTAGAGTTGTGTCCCGTCGGCCTAGAGGTCACTCTGTTGTGCATGCTCTAGCTTCATGTCTACTGATGAGATAAACTATCACTGTGTGGGGGGGTATCACACGGGCAATCAGCAGTCATGAGCAGAAAGAGGTGAATGCATGCTCGCTCACTTGTACTCAGCTTACTTTGTCCACTCTGACTCAGTTTAAGTCTCCCCTCAGCCCCCGCCTAAGAATGATGCCACTCATGCGAGCTGCAGATTCCACATCAAGTCACTTCACTAAGACAATTCATATAGAAATACCCACAGGCCACCCCAGTCTACACATCCCTTACTGAGATTCTCTTCCCGGGTGGTTCTAGGATGGGTGAAGTTGACAGTTGACACTGACCATCACAAAAGCCCAACTAGATGACACCATGTCCACGCTGTCCACAGAGGATGGCTAGGTGTCCACCTCAGACGCTAAGGTCTCTTTCCATTCCACAG
Seq C2 exon
TTGGAAGCACCAAGTATTTTGGCACTGCCAAAGCCCGCTACGACTTCTGTGCCCGGGACCGATCGGAACTGTCCCTTAAGGAGGGTGACATCATCAAGATCCTCAACAAGAAGGGACAGCAAGGCTGGTGGCGTGGGGAGATCTATGGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050430:ENSRNOT00000073294:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PD(6.7=12.8)
A:
NA
C2:
PF0001823=SH3_1=PU(85.1=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
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]