GgaINT0124341 @ galGal4
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr17:6494844-6495597:-
Coord C1 exon
chr17:6495433-6495597
Coord A exon
chr17:6494943-6495432
Coord C2 exon
chr17:6494844-6494942
Length
490 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
GATAATATTTTCTTCAACAGCCC
3' ss Score
7.56
Exon sequences
Seq C1 exon
CTCTTTTAGTAATCCCCAAGAAGTGAAACTGGTGTTAGAAATAATTAGAACAATTAAAGAAAAAAGAAAGGATCTAGGTCTTCGTCGCATTGGAATAATTACACCTTACAGTGCACAGAAAAAGAAAATTCAAGAGGAACTAGACAGAGTGTTCAAGAATAACAG
Seq A exon
GTAAATAAACCATGACGTTTCAAATGGGAAGTGGCTCTTGTGTATTAGTCCCTTGATTATCCTCTTAAAATCACAGCAAAAACTTTAACGTTTTTATGTGCTGCCAAAATCTCCACTTGGTAATGGTTTTGAAAAAGGACACTACCAACCTGTTCTCTTAAAACAAATGTGGTCTCTTTGTACCATTTCTTAGTTATTGCTTGTCTATGTGCTTTGATTTTATTGCTGTTCTGAGCGTAGCTGACTTGAAAGAAAATCCAAAATTCCAAGCGATGTGGAACTGAACAGCTTTTTTAGCAGTGATCTTGGCCTCAAAAAAGGAAATTTTGCTTTTTACTCATACACTGAATCTTTTCAAGTTCAGAAGCAGAGGCTTAGTTTGAATAGTTCTGACAGCTGATCATTCAGGATAGTTTAGGCCATTTGCATCACTGTGTTGCTTAAAAATCCAACTAACAATTTAATGGCTTGATAATATTTTCTTCAACAG
Seq C2 exon
CCCAGGAGAAGTGGATACAGTGGATGCATTTCAGGGGCGAGAGAAAGATTGCATCATAGTGACATGTGTCCGGGCAAACAGCTCTAAAGGGTCAATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.069
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(27.2=100)
A:
NA
C2:
PF130871=AAA_12=FE(16.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTTAGTAATCCCCAAGAAGTGA
R:
CCAATTGACCCTTTAGAGCTGT
Band lengths:
263-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]