BtaINT0131694 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024822 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr11:102385787-102386665:-
Coord C1 exon
chr11:102386478-102386665
Coord A exon
chr11:102385880-102386477
Coord C2 exon
chr11:102385787-102385879
Length
598 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
ATGCTGCTGCTCTTTTATAGAGG
3' ss Score
7.08
Exon sequences
Seq C1 exon
AAGGCACAGGACTACGGCTATGACCAGTCGATGATGGCCCGCTTCCACAAGCTCCTGGAGGAGAGTGTGGAGCACAACATGATTGGCAGGCTGCCCGTCTTACAGCTCACCATCCAGTACAGGATGCACCCGGACATATGCCTCTTTCCTTCTAGTTATATTTATGATGGAATCTTGAGAACAAATAG
Seq A exon
GTGGGTTCTTCTCATTGCATGTTAGCTTGTTTTATTTGTAGGTTTGGCTGCTTAGGAAGAATAGCTCTTTTACAGTGCTCTTAAGTCTTGTTATTAAAAACATAAAGGTTTAATAATTTAAATTATAAAAGTCATGTTGATTGTAGCAAATGCAGATAAATGAAAAGGGGGATAAAACCAACCCCCCTATTTATACTACCCAGAAATAATCACTAGTAACATTTTAGTATATTTACTTCCAGTCCTTGTACTATGCACATCTTTTGTTTTTTTTTTCCTTTTTCTCTTTTGGGAAAAAAGAATCATACCATGCTTTACCTACTATTTTATACTTTGCTTTTTTCATGTACTGTATTAGTAATTTTCCAGTCATAATTGTTATATTTTAAATACATAGATTATTCTCCCTAGCACTAGAATAGAAATAAAATTCACTTTCTTTTAGTGTATTGAAATTTTATTTTTTTAAAGACAAGTCCTTCTTGTCCCCTTTTCCCTAGCTCTCTCCCTGCCACATACACACAGAAAAATGGTAGTAATAATTTTAAAAAATGTTTCTGACTTGACTTGTGTTCTAAATGCTGCTGCTCTTTTATAG
Seq C2 exon
AGGGACAGAGACCAGTCGGTGTTCATCTGACTGGCCATTTCAACCCTACCTCGTGTTTGATGTTGGAGATGGCTTAGAAAGACGGGATAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024822:ENSBTAT00000042924:20
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:
PF130871=AAA_12=PU(27.7=88.9)
A:
NA
C2:
PF130871=AAA_12=FE(15.3=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:
AAGGCACAGGACTACGGCTAT
R:
TCATTATCCCGTCTTTCTAAGCCA
Band lengths:
281-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development