BtaINT0131688 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024822 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr11:102395641-102396046:-
Coord C1 exon
chr11:102395945-102396046
Coord A exon
chr11:102395757-102395944
Coord C2 exon
chr11:102395641-102395756
Length
188 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
TCTTTTTATTTTCTTTAAAGAAA
3' ss Score
7.21
Exon sequences
Seq C1 exon
GAAACTGTGGAGATATAAATTTAGTACGTCTAGGTCCAGAAAAGTCTATTAATAATGAGGTCCTGAAATTCAGTTTGGACAGTCAAGTTAACCACAGAATGA
Seq A exon
GTAAGTATGCAATAAAGGTATATACTAATTTATTTTTTTCTTGTTGTATAGTTGGCTTGGGCATTAAAGGTAATTTGGAGACCCTAGAAATAGTCTGATTTTGAAAGCTAGTTTTCCTTCTCATTGTGTGTGAATATGTATATATTTGTTAGAATGAGCAATTCTTTGTCTTTTTATTTTCTTTAAAG
Seq C2 exon
AAAAAGACTTACCGTCTCATGTTCAGGAGATGCACAAAAGAAAGGAATTTCTTGATCATCAACTTGATGAACTTTCCCGCCAGCGTGCTTTATGCCGAGGTGGAAGGGAATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024822:ENSBTAT00000042924:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.419
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(11.9=100)
A:
NA
C2:
PF130861=AAA_11=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATTTAGTACGTCTAGGTCCAGAA
R:
CTGCGATTCCCTTCCACCTC
Band lengths:
202-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development