GgaINT0039974 @ galGal4
Intron Retention
Gene
ENSGALG00000001915 | VAV3
Description
guanine nucleotide exchange factor VAV3 [Source:RefSeq peptide;Acc:NP_996745]
Coordinates
chr8:1072385-1076163:-
Coord C1 exon
chr8:1076095-1076163
Coord A exon
chr8:1072489-1076094
Coord C2 exon
chr8:1072385-1072488
Length
3606 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TTCTCATCACTGTTTTTAAGGAC
3' ss Score
7.36
Exon sequences
Seq C1 exon
TTTTTTATGGTGCCATTGAAAAGGTTTATGTCAGCATCAGAGTTTGAAACTGTTTTCATCAACATTCCT
Seq A exon
GTGAGTAACTGTGTATTTAATAAAGAGCTATAAGATTTGTATTTGGTTATGATATATTTGTGTTTTGCGTTAGTGCATAAAGTGGGTATTTGAAATGCAGTGCAAAATTGATTTATGTAGCAGTAGAGTACTCGATGAAAAAGAGTATGCACACTATTTTATTTTCTTTAGTCCTTTTCATGGAATAAAATGACAAATAGTACTCTTGTACCAGATGGCAAGTTTAACCACTTATAAACCAAACAGGATCATTTTTGTTCTGTAGAGTATAATTTATAGAAGATAGGTTGATTTCTAAAATATGCCACTATTGGAGTGACTGTATGAAATAGTCCCTGTTATGTTGCCTACCACTCAACATTCAGCAGTGCTTTGAATAGGATTTCTATAAAGAGTCTGCAAACCTTTGTATCTAGCCCGGTCTGTCATTGCAGCCATTTTGATGTTCAAATAAGTTTTAGATTCTGAATCTGGCACTGGACAGGAAAAGCAAATCCTCTGAAGTGTCTAGGAGACAATATTTGACTGAACTTTTCAAGGTTTCCTGTGATTATCACTTTGTCCCACTTATTTTTGGCCTGTTCACAATAGTATGACAATTTTTACATACCTTTTTTTGTAGTTGATATAAGTATCCAGCAGATATCTTTCCTTTATCTGACATGAAAGAAAGACATCAGACATGGTCTGAAGCTTCTCTGAACAGAGAGAAATGAAAGGACTTTCTTTTATGAGGCAGACTGTAAAGGAAGGATCCCCATAGGGTGGTCCACAGAACACATCAAACCTTAATCACCTATGAAAGATCATTTGTGTTGGCTATCTCTGGCATGTCCTGCAGCTTCTCAGGGCTGCGGGAAGGGGTGTTTGGGATTTTTTTATTCAATGGGACCTGGTCTGCAAAAATATTTTAATTGCTGAGCTAGTACCAACCTGGCTACAGTTAAATTATAGAAGTTATTGAACTGTTGAATCATAAGGTGATACCTCACATCTTTCCATATTTGTCTCTCTGTTAAAGTTTTCACTGTGAATCTTAATAGCTACTATTTCCTCCTCTTTGACCATTAGTCCAAAGTAGTGCTGCACACATCAGTAACCTACTTGTCTTAGAATATGTCAAGAGACATTTAGAGGACCCTTTGCTTCGAAAGACAAATTGTTGTTCGGTCCTATGATAATGTTTCTCATTCACTCTGAGTGAAGCTCTGATGTGACCTTCCTCACCTACTGCAAATTTTTCTAACTGCAGTGTGCCCAGGTACACTGACTTACCTGCGCTGAATACCTCGAAGCTAGCCAATGTGACATGCTTCACAGGGATGTAAAAGGGGCTTACGCACTGCAAACAGAAACTGAGAGATCAGCCTACTCACTACTCCTTCAAGATCTGTAAGGAGATAGATCAGCCTTTCAGTATAGTGAAGGCTGTAAGAAAGGAGACAGGCGTTTCAGCAGAAACGGTTGTGAGAGGACAAGGGGAAATGGTCTCAAACAAACCAAAAAAGAAAAAAAAAAAAAAAAGAAAAAAAAAAAGGGAATGGGGGGGAGATTTAGATGGGGTATAAGGAAAAAGTTTTCTACAGTAAGGATAGTGATGCACTGGAACTGGTCGCCCAGATAGGTGGAGGGTGCCCTGTCCTTGGAGGCATTCACGGGTCAAGTTGGATGGGGCTCTGAGCACATGGTAGAGATGTAGGTGTCCCTGTTCATTGCAGGGGAGTTGGGAAGGATGGCCTTTAAGGGTCCCGTTCTACTGAAATGAATCTATGATATTGAGATAAGAGGAGTAAAACGAACAAAAGCTATTCATCTGTGATCTGGAACTAGCAAAACATAACTGTTGTTAAGCTATTTTTTTATTTTGCTTTTTGTTATAGGCATGCAGTATTCTGCTTTTACAAGATCACAGTTATGTCTAATTCCTCCTAATGTCTCATAGGCATCTGACAGCACAGACAGAAACGTAGGACTTGTGTAAGCCAAAAAAAAATGTGCAAGTATTTTCTCTGCTCAGACCTTGTCTCTGCAGCAGTTCCTCAGCAGAAAGGCTGGAGGGCAGTGGAAGCTCACTTTAAACTAAAAATAGCTGTTAAAGCTCTACAGCGAATGGCAATGTGGAGAGCGGTTGTGGTGGTCTCAAAATAGGACAGATTTGTTACCATTAACAGGCTGTGGTGACTTACTGGTGCTTGAGGGTGATGCTCTGTTTGTTATATACGGATTATATGAGGATGCTAGCTGGCAAAATTATTTGCTGATGTTAAAATAGATTTTATTAAGAAAAAAGGCCCCAACCACAGCTCACCAGTCTAAATAGTGGCTTTCATCAGGGCTCAGAATTCAAAATTCTATCCTTGAAAATGTATATATGGTTGTATATTTGTGTACATGTGTGCACCTCTGTGTATGCATGTGAGATGCTTTTGTATGTATGTCTCTGCATGCATTTGAGGTACATGCAGACATATGGAGGGAGAGGGAGAAACAAACATCATGTACTGAAGTATTGACACTTCATTAATTTTAAATGACGTTAGCATTAGTTGAATTTAAAAAGTGAAGTAATTTTCATGGAAAGAGAAGTTTAAAGACATTATTTAACATTCAAATTCATTTCAGGTTTGCTGCTTAGCTGAGTCTCTGTACACTCCTGAAAAAATGTGCTGCTGTAGTGCATTCATCTGGAAGCGTTTCTGTAGTACTGTTTCTATATGCTGGAATTTAGGATTCTGAGGATATGGTTGTACAAGTGGTAGCAACTGAATTTGATTGGTTTTAAGCTTCTGTTACATCAGCTGTGATGTGATTGACCTTACAGATGCTCAGTTTCCATCAGTATGAGGCAAAGTGCTTTCACTTAATTCAGAACTCAATGTTTTGTATTTTCGTAATGTATCATTTACTGTGTTTAACAATTTTTGGCAGCTTTCATAAACAGTCCTCTATTTTTCATTACAGAGGTCTGCATACCACTTAATTATCCTGATTATAGAATTTCTTAACCTGTTTTGACTTAATTCGTTATGACTTTTCTGACAGCATCCATACAGCATAAGGCTGGTGTCATCTATAATAGCATACAGGTTTTCTTCTATAATAGCAAACTAAGATTCTTTTCTACCGTGCTCACGGAGAAAATTCTTCTGCAGTATTCTTGCCTCTCTCTCAGCCATTAGTTGTCTGCTGTATTGGGAAACTCATTATGATTGCAGTTAACTTAGCACTAGACCATCACTAATTGACCAATGTAATGTACAAAACTAATTTTTCACAGCTCAGGGACATGAATCATTACTTTATCTTGTCACTAAAGCATTTACTTGACTTGCTTAATTTTAAAATGATCGTTATAAAATGAAGATGAATTAACAGTGCACATTCCAAGCCCGAATAAATGAGTCTTAAATAGGTAGTTCTTGGAATTCAGCTTTTCTTATTGCAGTGTGTGGAAGATGTGAAAACCTTGAATTTAGGTTCTAACCCCAAATGATCTGTTTTCCAATTTATTCAATTAATGGATCTACGATGAAGCCACTTATTTTTATATTTAAAACTTAGATCTGTTTTTAAAATAATTTCCCCCTTCTCATCACTGTTTTTAAG
Seq C2 exon
GACTTGGTGAAAATTCACAGGAGTCTAACACAGGACATCAGTGATTCCATTATTAACAAAAACGATCAGAACTTGTATCAAATTTTTATTAACTACAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001915:ENSGALT00000002946:6
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=FE(19.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]