GgaINT0124868 @ galGal3
Intron Retention
Gene
ENSGALG00000002699 | VAV2
Description
NA
Coordinates
chr17:7749087-7750904:-
Coord C1 exon
chr17:7750802-7750904
Coord A exon
chr17:7749186-7750801
Coord C2 exon
chr17:7749087-7749185
Length
1616 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACT
5' ss Score
6.06
3' ss Seq
CTGGTTTTCACTTCCTCTAGAAA
3' ss Score
8.28
Exon sequences
Seq C1 exon
TGAGCACGATCTGGGGGAGGATATTTATGACTGCGTCCCCTGTGAAGATGAAGGCGATGATATCTACGAAGATATCATCCGGGTGGAAGTTCAGCAGCCCATG
Seq A exon
GTAACTCTTTACATTTGTTTTTAGAGCTGTGGTAGAGGGGGCGGTTTGGGGGGGGAGGATGAAATTAAATAAATGAGGGATCCACGAATGATGGGGAATGCAGCAGGGAGGAGAAGGGCTGCCCTGATTTCTGCTGGCACAGAGCTGGGAGGAGCTTTCCGTCGCAGTATGAGCTTCCAAATTGTCTCTCATCCTCTGAATATCTGCCACCTTCGTGTAAACTCTCATCACTGTCTCCTGCCTGCAAACAGCAGACGGCAGCAGAGCACAGCTGCCCGGAGCAAAACAAGCTGAGTGACAGATCCCCTCCACGCCAGGCACGTGGCGGTGCTGGGTGGCACTGGGAGGCTGCAGACTGGTGCCCGGGTCTGGCTGCAAGCAATGCAAGGTCCGTGACAGTGCTGGGTGAGGGATCCATCACTTCACGCCTTGTCTACAGCCATTGCACACCATCAGCCTGCCTGGAGCCAGGAGTTGGGTGCACATATTCCCAAGGAGCCTTGCCAAGGCACATGGGGCTGTTAGCAGGCAGTGCCAGGGCAGCATAGTAGCCACCAGTGGCTGTTTGCTGTTTTGCCACTGGTGCACGGTTGGCCCAAGGGCTGCCACTTGGAGAGGTTTTGGTAGGAATTTCTGCCACAGAAGGCAAAAATAGGGCAACAGTCCCACCGTGTGGGTGCCCAGCAGCCAGGTGCTGCAGGATTAGGGGCACTGAGGGCAGTTTGTCACTGTGCCCTCTGCAGTATTCTGTATTCTCCTGGATATTGCTGGGTCGGTGGCTCTGGCTCCCTTTCCTCCCTGCGTTCGAGCAAGAAATCTATTTTTAATATGATCACCCACGTTCCTGTCTACATATTGGATTTTTTTAAGCTTTGTTGCCATAGCAAGTGTGTAATGCTAATTGGTTTCTTGTGTTTCTGCATGCTTCAGATTAGATACATGCAGGTAAGATGTTAATTAAAACCCTGGGTTCCATCCAGATGATTGGTTCAGGCCATGAGTTCCAGCATGGTGTACAGAGGAGGGCCGTTCCTGTGCATGGTCATCAATCACCTCCCAAACCCAAACACCTCCCAGCACGTGTTCTCAGCTCCTCTTTGCAAATCAAAGAGTGAGAGGAGCAGCTCCAGGAGTTGGGGCTTTAAGAAAAAGCATGTATGTATGATCACATCTGACCTAAAGCCATGAGAATTGGCAGCCCTGGCAGGGGATTTGTGTAAGGCTAACGTTATTTATGACCCATTTAGGCTCTGCTGTGAGTTTCATCTTAAGCAAAAGAAAAACAAACAGCACCACCAAAACAACAAAACAAAGGCCAGAGAGAGAGGAAAAGAGCATTTATCTCTCATTTCTTCTTTTGCTGTTCATCTTTGGTGGCGTAGTTGTTATAAATGGAAAAAAGGCAATGCTGTCTGTGTTGAAGCATATTGAATAGCAGAGCCGAGGTCTCTTCTTATGTTTCCTGGATAAAAACTGTTTCCTTTAACGTAAACCAATGACAGTGCTCCTCTGACTGTCCTAACCTGCACTTGTTGTGACTGTGCCATCACTGGAGGCAGAACTGGAGCTGTGCCACCCTTCAGCCCCTGACCATGCCTGGTTTTCACTTCCTCTAG
Seq C2 exon
AAAATGGGCATGACAGAAGATGACAAAAGGAATTGCTGTTTGCTAGAAATCCAGGAGACGGAGGCCAAATACTACAAAACACTTGAAGACATAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002699:ENSGALT00000004255:5
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:
NO
A:
NA
C2:
PF0062115=RhoGEF=PU(11.5=60.6)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACGATCTGGGGGAGGATAT
R:
CTTCTCTATGTCTTCAAGTGTTTTGT
Band lengths:
199-1815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]