HsaINT0148412 @ hg38
Intron Retention
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr9:132275256-132277152:-
Coord C1 exon
chr9:132277060-132277152
Coord A exon
chr9:132275421-132277059
Coord C2 exon
chr9:132275256-132275420
Length
1639 bp
Sequences
Splice sites
5' ss Seq
TGAGTATGT
5' ss Score
4.43
3' ss Seq
TCTTTTTCCATCTTGTTTAGCTC
3' ss Score
8.79
Exon sequences
Seq C1 exon
ACAGACAGAAGCCATTCGATGTTCATCAGATTGGCCATTTCAGCCATACCTTGTGTTTGATGTTGGAGATGGTTCAGAAAGACGGGATAATGA
Seq A exon
GTATGTTTTCCTCTTGCCTCAGTCCTCTGATAGTCCCAGAATTGTTACATGATTTGCATTCATATTTCTGTTAAATACATTTCCTATACACATCTCTCTGCCTAGTGTCAGGGCACAGTCATGTTCACTTAAGTTGATGCTTCTTTTTTCTGTATAATGGGGATAATATTACCTAATGTCATAAGCAAGTGCTTGAGTAGATACTTGTTGAGCTCACAGCAGTGAGGGAAACAGACGTGCCCATTGCAAGATGGTGGTCTCATGGGAAGACAGGCCTTCAGCAGGTCATCACCTGGGTAAGCAGTTATTCCAGTTGGGTTAAGTACTGTGAAGGCTAAGTATAAATTCAGTTGAATGAAAATGTGAAAGGGAGGAAGGAAGTAGTGACAGAGGTTGGATGGTATTGGGTTGTGAATAAGGGCATGTGTTCAGGTGGTCTGTATATGACAGCAAAGAGGAGTGGTGTTGCTAGAAGCAGCAATGTCAGAGGAGCTGGGGATTCTTGTGAGAGAGTAGGGGAGGAATGGTCTAGGGGCAGCATTTGTTGGCACGGATACAAGTGCCACTCTGTCATGAAGTAGGAGGAAACACAAATCCCACTTCTACATCATGGGATGGCTGCAGAGCAGGTGGCGTCCTCAGGCGAGAATCAGGCGTTAGATAAGATACAGAGGTGGAAGTAGGGAACACTCATTGAAGAGGTTACACATACAGAGGAGTTGTTGGCCATGGGATTGTAGTGCTGGAGGGACTGCAGCCTAAAGGTTTTAATGAGGCCTCTTGGAGGAGAGCAGAGGATTGCGAGTTAAGCCGCAGAGCATCATGAGGATTTCAGGGATGGAAGAGATCGCTAGCTGATTGGGTTGTCCATTTAGTAAGTCTCAAAGTTAGGAGAATGGGTATTTAAGGCTCGTAAAGCAAGGCGGGTAAGGTAGCCTCAGGAATCAAGGGATGGGGCAGTGCATCCCCTGGTCTTGGTGCATTTTGGGTCCGGTATGGTCATGAGGGAGCATGTGTTTTCAGGAGGGGTTGAGAGTGCAGGATATGAGGCTGCTGAGGACTACAAAGAGGACATGAACCTGCTCCAGGGCCCCATGTTGTTCAACTGGGGTCAAGTGGGACACATCCTTCACATTGAGTCTGTGTGGATGGCAGCTGCTCGGTTGTGTGGTGTGTGTTGTATGCAGCCAGTGGTGAGGGACAAGGAAGATCATACATGTAAAGCATTTTCTCAGTGTTCGGAAGATAGTTAATCCTTAATTCATGTTAGCTATCTCTTATTCACATCTTTGTTCTTATTAATACTGCTGTTCTTAATACTGCTCTCCCTGTTTCAACAGATGAAGAAAGTGGTGCCTAAACTTCAGTTGATTTCAAACTCTTTTCTCTCTACAACTTCATTTTTCACTGGGCATTTCACATGTATTCATATTTACCATAGTATTTTCACATTTATTCATATATACCATATTAATGGTCATTGTAACAGCCTCTTGGAGTCACTGCTAGCTGAATAAAAGATGAAGCCTATCTGCCTGCCCTTTACTATAATGGGAAACAAACTCAGTGGAACTTAAGTTAGCAATTAGCCTGCTATTAGTTTTGATAACACTGTGTTTTCTTTTTCCATCTTGTTTAG
Seq C2 exon
CTCATATATAAATGTTCAAGAAATAAAACTGGTGATGGAAATAATTAAGCTTATTAAAGACAAAAGAAAGGATGTTAGTTTTCGAAACATTGGCATAATAACTCATTACAAGGCCCAGAAGACGATGATTCAGAAGGATTTGGACAAAGAGTTCGATAGAAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290:ENST00000224140:22
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=FE(15.3=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.2=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:
ACAGACAGAAGCCATTCGATGT
R:
CCTTTTCTATCGAACTCTTTGTCCA
Band lengths:
258-1897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains