RnoINT0162641 @ rn6
Intron Retention
Gene
ENSRNOG00000007422 | Vav2
Description
vav guanine nucleotide exchange factor 2 [Source:RGD Symbol;Acc:1306285]
Coordinates
chr3:5834846-5837633:-
Coord C1 exon
chr3:5837565-5837633
Coord A exon
chr3:5834933-5837564
Coord C2 exon
chr3:5834846-5834932
Length
2632 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GAGCCTGTCTTGATTTCTAGGAC
3' ss Score
8.84
Exon sequences
Seq C1 exon
GAGCTCCTGAGCCATTCCGCAGACCGGCCTGAAAGACAACAGCTCAAAGAAGCACTGGAAGCCATGCAG
Seq A exon
GTAAGGGGATGAGGCAGAGCTGGGGGAGTTCAGACTGGTGTGCACGTGTTCCCGGATCCAAACCGAGCTCCTTGGCAGTGCGGTCCATTTGCTCGGGGTAACACAGACAGGACACTGGGGGGTGGGGTTAGACTTAAATGATGGTGGATGGAGCTGCAGGCTAGGCTGCTTTCACGGTGTGTCCAAAGTCTCCAACTTTTCTTGCCAGCAGTTGCCCTGGTCCCCACACTGCATTTCCAAATGTCTACTGGGGCCATCAAAGGTTTTCGGACGCCAGCTCTATCCTGGGGTAGCTCTTTTCCTCCTGGGCTTCTGCTGATGAAGTTCTGTCCCATGTCCTGCCCCATCACTCACTTGAGGGTTCCTTTTCACGTGCTGGCTTTGAAGACCCCTGTTCAGCCATTCTATGCCTCATGTGTGACAGTCCACTGCCTTTGGGAGCTCAGCACGTCCCTGTCCTGCTCAGACACCTTTGTGGCTTCCACTGTGCTCTGAATCAGGCCAGGGTCATTGAAGATGTGTGTAACAGGACAGTCTCAGACTCTAGGGAAGCCAGACCACCTTTAGGTTCCTGGGCGTGCTCTATTCTTTCCCACCCACGGTGTGCTCAGGCCATGTCCTCTTCCTCGCTAATTTGTCTGTGGCCCACTCACTCTGGCTTTGCCATGAACTTGACACTGTCCAAGAAATTCACCTTCCAGACCCCTTAGCCCAGGGACTGTCAGGCTACCCCGTAGCCATACCTGTTCCTCTCATAGATACCTGACTTAGACAGGGTGGAGTGCCTGCCAGGCTGGGTCCCTTTGGTACTACACTGTTAGAGAAGTGGTAGTTGCAGCATTGACTTCTGACACCTGAGGAGTCTTCTGGTCTACGGACACCTTCTTTCCCCAAGACACCTCATTTAAAGAGGAGGGAGACGGACCCAATGGGAAAGACATGCTCTCAAAGCTGCCTGGAGCTCTCTGTGAGAAGGCTTCATGCTGGAAAAGTTTGTACCAGTTTTAGGTATACTTAAACATGGCTGACATGGGGACCTCTGGCTGGCTCCCCTGGGGAACTGAGGTCACTGTAGCAGAGGGACCACATCTTCCCACTGCAGACACAATTGAGTGTCAGCCATTCCTGGGACATATTTGTAACCGAGATTCATAGCTACAGGTGTGCCCTAAGCCCCAGCCTGGACAGCAAGTGGCTTTTGGTCCCTTTGTGGAAAGTACCCTGAGGATATACAGCTCCTGACATTCCACAGAGGCTTTGTGACTCTGTGTCTTCTTATCACTGGGAGCCAGCTCTTCAAACTTCAAAGTTTGGGAGGTGTCCTGGTTTGCTTTCTGTTACTGTGATAAACACCACAATCAAAAGCAACTTAGGGGAGAGAAAGGTTTTAGATTCCTTTCCCAGGTCACAGTCAGTCACGTAGGGAAATCGGAAAGAATTCAAGGCAGAAACCACAGACAGAAGGCTGCTTACTGACTCACTTCCTGGAGTGCTTAGCTAGTTCTCTAATACAGCCCACCTGCCTAGGAATGGCGCCACCTGCAGTGGGCAGTCCTCTCTCTTCTCTGTCATCAGTCAAAACTCTCTCTCAGACAGGAACACAAAGACAGTGTGATCAATGCAGTTCTTCAACTGAGGTACCCTCTATGAAAACTAACAACTACAGCAGGGAATCTAAAAGCCTTTAATGTCTCCAATATAAAGCAGAAAATCACTCATCCAGTCAGTGTCTGAGCTGTCACTGCCCTGCAGCTAGGTTTCCCACAGGGTTGCATTACACGCTCCGTGCAAGGCTGTGTCCTCTGCAAGTTGGCTGCTTTGCCTCTGATGCTTGGTCTCTGTGGGAATCCCCATCTCAGACATGCACTTCCCTGACTCTGGCCTGGTGTGCATGGGGCGACACGTGCTCAGCTTCATCCCTGCTGGTGATTTAGAACAAAACCCACCCTTTTCAAAACTGCAGCACCTGGTAGGAGCTGCCAGTCCTAAGGTTTGCGGGGTGGCTCTTGAAGTGACCCCAGAAGCAAGAGAGGCCATGAGGGAGGTGGGAACTGCCTCCAGGATGTGGGTCTGGCTTTTGCGTGTTGGGGATTTCCTCTCTGCTCTGCTCTCTGGGCAGGATCCCTGCTGCCCTGACCCAGCCACCACTGGGCATCGCTTCCAGGCCATTACAAACTTCTGAAGAAAAGTGAGCACTGCCCCCTGGTGACTAACTAGAGAATTGCAGTAGCCTGTAGGGACCTCCTTCACCCAAGGCAATAACAGAATACCCAGGCTCTGCAGGGGAGGGGGGCTTCATGAGAACAGAAAGGTCTAGACAGTGACTGTGTATGGTCCACTGTGGCCTAGCCATGCTGGGCTGAATCTCCATTCTGACACAGAAGGCCTGCTGAGTGAAGGGAGCCTGGATTTGGGGGTTCTGGTCCCTCTCTTCAGTGCACTGTGTACTCTGGTTCAAATGTTGTGTTCTTATTCCTTCTTGGTTACCTGTATGTGGTGTTCCTTACTCTGATAGCCCAGAGTTTGAGTGCCCCAGGCAAGATGGAGTAAGAGTATAGCTAGCTGGACTAGGAAGGGGCTGGGAGTTCACCCCCTGTGAGACTTGGTGCACTGAGCCTGTCTTGATTTCTAG
Seq C2 exon
GACTTGGCCATGTATATTAATGAAGTGAAACGGGACAAGGAGACCTTGAAGAAGATTAGTGAGTTCCAGTGCTCCATAGAAAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007422:ENSRNOT00000009893:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(12.6=100),PF084296=PLU-1=FE(14.1=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1),PF084296=PLU-1=FE(17.9=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]