RnoINT0162683 @ rn6
Intron Retention
Gene
ENSRNOG00000020485 | Vav3
Description
vav guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:1565941]
Coordinates
chr2:212582926-212585818:+
Coord C1 exon
chr2:212582926-212583077
Coord A exon
chr2:212583078-212583678
Coord C2 exon
chr2:212583679-212585818
Length
601 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CTGTTCCTTATCTCCCGTAGGTG
3' ss Score
11.38
Exon sequences
Seq C1 exon
TGCTAAGTCCCAAAGTTCTGGGCATTGCCATCGCTCGGTATGACTTCTGTGCAAGAGATATGCGGGAGCTCTCCCTATTGAAAGGAGACATGGTGAAGATTTACACAAAGATGAGTGCAAATGGCTGGTGGAGAGGAGAAGTAAATGGCAGG
Seq A exon
GTGAGTTGGCCCTTCAATTGTGTCAGTTCTTTGTGAATGAGAGGGCTGGACAATCACTGGCATGATAATGTTGTGGACTTGTCCTTTCAGCAGTCTGGCTGCCAAGGACTGGAGGCATGCATTGCCATTCAAAATGGCTTGGGTCAATACAGTAGGGGCCACGAGTTGACTGGCACATCAGAAGAGTTGAGCGGTCTTTTTGTCAGTAGTTAAGCACCACTGTATGCAGTTTATATAAGCATCAAGCATTTCCAAAAGCTCCCAATCCCTGTTGGAAAGACTGGGACGGAGTACCTCTGTTTTTCATCCATATCCTGTCCTACCAAAGAGATAGAATCATGGTGCTGAGTCCCATATTGCCCTGATATGTGTATTCATTTGTGAGCTAGTGGATTAGAGCCCTGTTTAAGCTCATTTTATTACTAGGTTTCTATCACTATCTTTATGAGGCCTATCCCTGTCCTTGCTGTTAAGCCAATGTTCCCACAGTAAGCATAAAACCCCAGCATAATTAGTGTGTTGGGAAAATAAGGAATTTTCTGTCTGTAGAATCCTTTGAAGCACTAGAGGTGTTGATAAGTCTGTTCCTTATCTCCCGTAG
Seq C2 exon
GTGGGCTGGTTTCCATCCACGTATGTGGAAGAAGACGAGTAAAGTCCAATCCAGAGTTGATCCTGCACCAAAATCTCAGGCAACACAGACAGAAACCTGCACGCCATTATGAGTTAACTCAAGTGTTTAGAAAGCAGCGTTCTTGGCTGTTCAACACCCTCTTTTCTCTCTTCCTAAGTCTTAACGCTGGGATTTCTAAAGATTCTGGTACTGACAGATTAATAGCTTGCCTAGAGCAGTGCAAGAAACAACCTGCCTGCCTACCATTGTCAGGAACCAGGGCAAAGCCAACCGCTTTCCTTCCCCAAAAGAGTCCTGCAAACACATCAGGTTTCTCTTCATTGGGCCAGACACCATGGATCCAACTGTTAGGAAATGCTTCCTGCATATTTACTTTGTTCTTACAGTTTTTGATGATACAAAGAAATACAAGTTTAATTTTGCTTTTTCCCAGCATGAAGAAAAAGTAGAGTCTGCCATCTGGGAAAGATCCAGCTTGCTGGAGAGATCCAGCATTTCTCGTCTTAAATTGTTCAACAGGTGACTCACTGCCTGGCAAACACTTTTATCCCCAGATGTTACTCATGATAAAATAAAAGAGCCTCATGCTCAGGTTTGCATCATAAGTGATAAATTACAGAGAGGGTTTTAATTATTCATTTGATGTCCTGATTATATTTCCACACTTCTTTATAAAGAAGAAAAAGAGAAGCACTTGAAAGGAAGTGTCTTTGTATGAAAGCCTCGCAGTTTTTGTGGTTTCAGAGGGTGTTTTGGAAATGTCATGCCTGACAAGGAATCGTGGCCGGGCAGATCATGCTTGGTTGCCAGGAATCCCAGAGGTAGAGGTGTTTACAGAGACAGATCAAGTGCTGTAATCAATCCATAGGATATCACTATATAGCTGCAATAGCTATGAACACAAGCCTTCCTTCTCTCTAGAGACCCGAGGCATAGTTGCTGATTTCCACTGTTTTTTATTTTTTTTTAATGGTAGCACAAAAGAGCTTTATTGAGGATTTGGGAAGAAAGGCACACCGAGTCCTTCATTTCTTTCTGAGACAGAAGGAACCTGATTTCTGTGTTCTCATGGCTCCTCTGTTTTCCCTTCTGAAGCCTTTCTTGCTATGTCTTAATCAGTAGGAAGATCCACTTTGCAGCATGTTTCTTTCTCCAAGCTTTCACTGTGTTCCACGAGGAGTCTAAGTATCTTCCTCCTGAGATGCGTGGAGTCCCTAGTTGAGGCTGACAAGTTAAGATACTAACTTGCCCTTCCATGGTAGAGTATTTCTTTGGTAGCAGTAGCTATGTTCTGTCAAGATTCAGAAAATGTTTCTGCTTGGATAAAAGATAGAGGTATTTTTATCTTAGAAGTGATCTCTAAGTGTCTCTGATACCAGATTTTTGGGGTCACCTCTAACATGAAAGGGCTGAGGCAACCTGTCCTCTCCTGTCTCACAGGAGTGCCAGAGCCTGTTTCGTGGACACATCTCCCTGGAGGAGACCCCATCGGGGCTAGGACTTTTCATTTAAATAGACTCAAGACCTTTACCTCAGAATTATGTAAACTGTGATTGTGTTTTAGAACAATTGAGCTTTTGTATATGTGTAAATGGTGATGAAAATGTATTTTATAAAATGTCTGTATAGTGAACTTGTGCTGACAAGGTCTACTCTTGGAATGGATTCCTACCTTTAAGGTCTTATCTGTGTCTTGGGGATGTTTTGTATGTTAGTGTTGGCAAGTGTTGCTATGGAGAGTACAGCTTCCCACAGGTTGAAACACTCCTGTGTACAGTATTGTAGCACGTATTGTTTATTTCAGTCAATAGACTCCCTGCCTCACGAGTGCAATGTGGTCTTCCTGTTGCATTTCATTGGCCTCAGCGTTTCATAGCGGAGGACACAAGAGCCTCTCTTCATGACATTACCAATGATGACTTTGTCTACATTTAATACTTTGTATTGGAGATTTTAAATGCCATGACCTGTGTAGATTTCTAATACCAAAGACAGACATAAATGTTTTCCATAGACTTTGTCTTGCCTGTCTGTAGCCCCTGTGTAATATGGTGAGTTAGAATGGCATTTTACTTTGTAATATTTTGTAAATATGTCAATAAAATAGTTACTACTTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020485:ENSRNOT00000027813:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765312=SH3_2=PU(75.9=80.4)
A:
NA
C2:
PF0765312=SH3_2=PD(20.4=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGCTGGTGGAGAGGAGAA
R:
CTTTTGGGGAAGGAAAGCGGT
Band lengths:
344-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]