RnoINT0162667 @ rn6
Intron Retention
Gene
ENSRNOG00000020485 | Vav3
Description
vav guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:1565941]
Coordinates
chr2:212420957-212422778:+
Coord C1 exon
chr2:212420957-212421025
Coord A exon
chr2:212421026-212422691
Coord C2 exon
chr2:212422692-212422778
Length
1666 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCCTTCTCTCCATTCTCTAGGAC
3' ss Score
11.86
Exon sequences
Seq C1 exon
GAGCTGGTTAAACACACCCATGATCCCATGGAGAAGTCGAACCTGAAGCTGGCTCTGGATGCAATGAAG
Seq A exon
GTAAGGCAGCTGCAGTAGAAACTTGCTGGTGTCTTGTAATGCTGCCCAGAAACAATGGGATCCGAACACTAGTGTGTCTCTGTGATACCCTGAGCCGTTAACATTCACGCTTGTATTGGTGAGGCAAGCAAACCGATTTGCTGACACGGACATCCGTTATGTTGTCCCTGTCTGCTTTGATGAGCCTAGGACTTCCTGCTATTTGCTATGTGACCTAGACTGGCCTCAAACTGTGGCTCTCTTCCTCCATCAGCCTCTGAAATGGAATTGGTGCCAGATGAAAGGGCCATAACTCCAAGAGGGATGCTAAAAACTACTTTTGTCCAGTTTGTTCACATTTTAGCCTCCAGCAATGATTGCATATAATGACTTTGTTCCACAGTCTTCTCATTGTTTTGCATATAGCTGTTGGCCTGAATAAGCTGAGGGTCAAAGGTGACTTGAGGATCGCCAGTGTGGTTCATTTTCCCAAGACCCATCCACTGCCAGGTTGCCTTGTACAGGTGGATCCTGGACGTGGCGATTTCACTTTGGGTTTTTGTTTCCAGTTAAACCTGAAAGTCAAGAAGCAGATGTGGTCTTGTCAGGGAATGTCTGAAAGCACAAATTCTACATATTGCTTTGTCAACTTGACTCTGAGCTGTAACTGACACAGAAACACGTGTTTGTTTTGGAAAGAAAGTGACAGGGCATTATAGTTAGTTAACTGCTCTGGACCAGCCTTAGCGTTGGCTCTGCTGTTTAGTCAATCATAGTGTGAGCGTCAAGACCATCACTTGGTCGCTTATTGTGGCTAGAAGAGCAACACATTTTTGTTGCCTTTTAGAAGTCATTTATAGAGGGTCCTACAGAAGCCAAGTGGCCCGAGAGCACAGTTAAGTGTTGCTGCTTGCACAGTTCCTGTTGCAGATGTGTTAAAGAGGCTAAAGGAAAGAAGGATAGAAAAAGCTTAGAAAACAGGAAAATGTGGATCACACAAAGTAAAAATAGCCGGTTACAGTATGGGAGGATTAGGTAATGCTTTTGCATTTATTTTAAAAGCCATTTTTAAATAGGTAAAGGCGTGCAGAGCAGCATGGCTGAAGGTCTTGTTGACTTTACTCTGCCTCCGTGCAGCTCTGCTCCTCACCTCTGCTTTGTTTCTCTTTTATTCACTCTGAAATTGAACTAGACTTCTTGACTGAGCTCTCTCAGGAGCTAATGAGACATTAACTGGTTTCAAAAGGACAGACTTGCTAGGGCAACCTGTAACTCTGTGTTAGGTTTCTTTGCTGCTTATCCTTCAGCCGTGCCCTTCCTGTCACCTGGGGAGAGATGCACCACTGTCACTGTCATGGGCAGCCATGATGCTCCTGGAATTTAAATCCTCCTGACCTACTTTTCCTTGGATTCTGGTTTCTCTGTTTTTTAAGGCAGCGGCGTCCTCATCCTCCTCAGAGGTGTGGTAGATGACAACTCTTCACACTTCCCAGCTGCATACCCCACACTTTACAATTGGCTTTGAGACACAACTTTGATTGACTGAGTGTTCATTTCTATTGTCATTGAGACATGATGGTGGTGACTTTCATCGCTGAGGAAACTAATGATGTGTTTTTCTTTCAAAGCAGCTCACATCTCTAATCTTCCTGTGCTTTCTTTCTTCACCCTTCTCTCCATTCTCTAG
Seq C2 exon
GACTTGGCACAATATGTGAATGAAGTAAAAAGAGATAATGAGACCCTTCGTGAAATTAAGCAGTTTCAGCTATCTATAGAAAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020485:ENSRNOT00000027813:11
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=FE(12.6=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1)
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]