RnoINT0162666 @ rn6
Intron Retention
Gene
ENSRNOG00000020485 | Vav3
Description
vav guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:1565941]
Coordinates
chr2:212417108-212421025:+
Coord C1 exon
chr2:212417108-212417203
Coord A exon
chr2:212417204-212420956
Coord C2 exon
chr2:212420957-212421025
Length
3753 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
AACCTGGGTCTTCCAAATAGGAG
3' ss Score
6.97
Exon sequences
Seq C1 exon
GAATGTTCAAAGAGAGCCAATAATGGGAAATTTACTCTGCGTGATTTGCTGGTAGTTCCCATGCAGCGGGTGCTGAAATATCACCTCCTCCTTCAG
Seq A exon
GTCGGTACATTAACAACCCTCTACTGTGCATTCGTTCAGCCCACAGAACACTGGTGGGCATCAGCGTCTACGGAGTCTCCATGCTATTAGGGCTAAGTGTGAGATGGCCTGGACAGCTAGGGGTCTTACTCTCCTTTTAAGAAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGATAGATAGATGATAGATAGATAGATGATTGATAGATGATAGATAGATGATTGATAGATGATAGGTAGATAGATAGATAGATGATAGATAGGTGATAGAATAATTCTGCATTTACTAAAAAGACACATTTTGTGTTCTTCATACAGGATAGGAAAAAATAAAGAGTGAAACAGATACTAGTAACAATATTCCTTCAACGACATCTTTCGGAGTTAGCAATAATCATTTGCTAGTGAATCAATGAACCTGAGTGTGGTCAGATTACCCTCATTAGACTCTCTGCCTTATCACAATAATTAAGAGAATATTGTATCGCAGGCCGTATTGCTTTTTCACTGCACTAAATGTAATAAGACGACATCTATTGTGAGGAGATTCTTACTATAACCTGCAAAGTTTATGGTTTCCACGGTTAGTCCTCTAATGAGGGTGGAGAGCCTTATAAATTTAATTTGATAGCTATACCAGGAGGCTCATTAGTTCTGCTCCAAAGAAATGTCTTATTGTATTAGTCTGTGAACCCGGCTGATGCTTGCGGAATGTCATTTTGAAAAGATCTACTACCTGTACGTGAAATAGAATTTTGAGTCTTCTGTGCTTTGTACACCTTGTATATTAAATTTCTTGAACTGTAGCCATGCAATTATTCGTCATTTCTATTTTGGTTCTACTGAGAAATCAGAAAAATTCAAACCCTGATTATTTCTTAAAAATGCATTAAAACATTCATGAGACCTAAACTCAAAGCAACTTAATCAAATTGGATTTTATGAAAAAATAATAAGGGGTGACTCAGGCAATCAGCTTTCAAGGCTTCATGGAGCTAAAACTGGTCCAAAATAAGATAATAATTTGCTTTGTTTCTTTGATGTAGCGAAGCACTGACTGAAGAATTCAGAAGGTTCAGATCAAGAGAAAGACTCTTTGGGTCCTTGTAAGATTTTGTGCAGACTCAAAAACTAAGAAATACAATGATATGTCTTTGGAATTCCTGACTTACCCTGTTTTTTTTTTCCTTCTGTTGTTTTGTATTTTAGATTTCAAGCGTATGTGTAATTCTACAATGGTTTTTTTTTAAGACTAGGAAGCTCTGTTTTTGGTACTATATGTAGATAAGAATTTTAGAGATTTTTAAAAAAGACTTTTAAAGTATTTTGGAGCATTTGTCTGGTGTCTAGACAAATTATTAGTTTGTGATTTTTTTCTCCTTACTAGTGCACTTTCATGATTTCTAAAGGAAATCTCTTCCGGATGCTGGCTGGTCTGAGGACAATGACATAAAATTTTAAATATTTCTGACAACCAGGGAGCCTGCATGGGTCTGACCTAGACCCTCTCTATATATGATACAGTAGTGTAGCTTGTTTGTGACTCCTTACAGTGGGAGTTGGGATGTCTCTGACTCTTTCTTACTTTGGGGACTTTTTCCCCTACTTTCCTCATCCAGCCTAAATGCAAGGGGAGGTGCCTCGTCTTACTGTAACTTGATATGTCATGTTTGGTGGATAGCCATGGGGGCCCTGCCCTTTTCTGAGGAGAAAAGGAGAAGTGGACCTGGGTGGGGGTGGGGATTGTGCAGTAGGCATTGGGAGAAGAGACGAGAGGAGAAACTGTAGTCAGGATGTAATATATGAGAGAATAAGTTAAAAAATTAAAGTATTTTATAGAGGGAGTTTTGCAAACTTAAAAAATGACTTACTAATACGTTTAACAAAGTGAGAATAAAAGTCAAATTTGGTGAATTTTTATACTTGGCAGTTTCTTCTTTTTGCAGGTCTTGTTTGTAATAGGAAACAGTGTCAGGGCTGGGAACTTTAGAAAAGTTTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGTGTGTGTGTGTGTGTGTGTGCACATATACACATCAAACCATGTTAGGAAGGCATTGGACCCACCTCAGCAATACTCACCAAACAAAGTCCAGTTCGTAAATCACCCCTCTAAGAAGAGAAGATGATGTCTCTATTTGGCTATCCAGCAAATCCAGGTGTAGTTATTGAGGCCTATGATAACTAATTTATAAATTAGACAAAGTAAGAAGTTAACAATAGTTAATAATAAAATAAAGCAATTAGGGACTGGACAGATGTCTCAGCAGTTAAGGGCACTGAGAGAACCCAAGTTCCATTCACATGGCAGCTTACAACTGTCTGTAACTCCAAGATCTGACATTCTCTCATAGACATGTATGCGGGCAAAACACCAATGCACATAAAGGTAAATGCATAGAATAATAAATCAAGCAACTATAGCAATATACTGTAATGAAGTTGTTTCCATCCCTACTCTTGTGGTTCGAAGCCATTATTAAGTAAGATAAAGATTGCTTCAAAGAGGACTTGTTAGTATGAGTTTGCCAAGTGGACAAGAGGAGGAACTTTCTAAAAGAAAAGTTCATGTCCTATGGGTTACACCTAAATGGCTTTGAGAAATATAGACTATTTAAGTGTGGATAGAAAGTAGGTTGTCTGGGTGGGAGTTGAGAAAAAGGGGTAAAGAGAATTTTGCAGGATCCAGATCCAAAGCATGACTTCTGGGAGGCAACTGGGTTACAGCTGAAGCACTGAGGACGTCACAGAAGTCTAACCAGGCTGCAGACAAGATCTGACTTCAGAGTTTAGAAACCTGCTAGGTATCAGAAGCATGGACAGCGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACTGAGACTCTAGGTCCAAAGTCCAACTGGGAACACTTAAGAACAACCTGTTCGAAAAATGGCAAGGAGCTGGTGTTAGGTAACTGCTAGGGACACGCTCACCAGGGCTGGGTCAGTAATATCAGTGAGGCATAGGGGAGAGAAGGGAAGGGCAGATCCTGGGACACCATTCAGGTTCTGGCTTTAGCTGTTACACCAGTGGAAATGCTCCCATTTAATTAGGCACCATCTGTCCCCACCTTGTCCTGGGTGAGAATGGAATATGTTTGGGACTTAATAAATTTAGGGGGCCTGTGAGTCTGGTATTGGGTGTGATGTCTGGGTTGAACATATATATGGCCTCATTAGGTGACAGTTGATGTGACAGTGGTTGTGATGTGGAGACTATGCAAAATAATAATAAAAGGGACGGTGATCGTGTGGACAAGAACAACCCTCTAAAGAGAAAGGAAGCTATTAGAGACTGAAATGTGCAGAAAATTGGGATTTATAAGCAAAATAGTAAGAACAGTAACTCACAGAGCATCCTCTTGTTCTCGAAACAGAGATGTGGAGTTAGGATAAACAGTCTTAGAGAAGCAGTGTGTTCTTGAGAGCTGAGGCCATCAGCCTAACATCCAGGAAACAGCATGCTTCTAATGGTGAGGGTAGAGTTGAGCTGAAAAAAAAAAGAGTCATAAGAACATAAAAATGCTCACACCGTGGAGAGACCGATAGTATCTTTAAAAGGGTTTGTCTGCTTGTTGCTTAGGTCTTAGTTTTGGATTTAGGGGGAGCGTTACTAACCTGGGTCTTCCAAATAG
Seq C2 exon
GAGCTGGTTAAACACACCCATGATCCCATGGAGAAGTCGAACCTGAAGCTGGCTCTGGATGCAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020485:ENSRNOT00000027813:10
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(17.7=100)
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]