HsaINT0148398 @ hg19
Intron Retention
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:445]
Coordinates
chr9:135229036-135230372:-
Coord C1 exon
chr9:135230304-135230372
Coord A exon
chr9:135229143-135230303
Coord C2 exon
chr9:135229036-135229142
Length
1161 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
TTTTTGTTTTTTAATTTCAGAAA
3' ss Score
9.7
Exon sequences
Seq C1 exon
CTTCCGCTGGTGGCCTAGAGCGGGGCCCGGTATGGAGGTGGGCTAGAGGCCGACGCCAGCCAGAGAGCG
Seq A exon
GTGAGGGTAGCGGCGGGCTGGAGGCCGTAGGTCGGGCGGGCGTGAGCGCAGGCGCGGCTTGTGCTTGCAGGGCCGCTTCGGGGAACCATCGCGGCGCCTAGGTCCCGGTGGGCGGATGGGGGAAGAGTCGGCGCGGGCTCGGCCGCTTCCCTCGGTGCGGGGGCGGGAGCACCCCTCGACGGCTGGCGGCCGCCTGTTGCCTTCCTGCGCGCTGGACCCGGCCGCTGCGACCCCCTGTCCTTCCGTTGTCTACACTGCGGTCTCGTGTGAGCTGTTTTTGGTGTGGATACTGCGTAGTTTCCTTGGGGCTGAGCGGGAGGTCTCGGGGTGGAAAGTGTCGGTTCCCTCCACACGCTCGTCTGCCTCTCGCCTGGAGTCCCTCCCTTTGTTTTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTGAGACGGGGTCTCGCTCTGTCACCCAGGCTGAAGTGCAGTGGAACAGTCACGGCTCGCAGCAACCTCGTCTTCCTGGGCTCCAGCGATCCTTCCGCCTCATCCCCCCGAGTAACTGGGACCATAGGCGCGCGTCACCACGCCCGGCTAATTAAAAACAAAATGTGTTGCAGAGACAGGGCCTGGCTGTGTTTCCCAGGCTGAGCTCAGCTGCTCCAGGGATCCTCCGAGCCGCCGCGCCCGGCCGGTCCCTTCGTTTGGAGGAGAGTCTGTTTCTCCCACTTGGAGGGGCTGGAGCTTTTGCTGCTGGCCACAGGACTTTGTCCGTCCTCCCCAACTTCTGGGGATCTAAGGATGTGCCCAGCAATTTGCACGACCCAAGTGAAACGGGGGTGACTGCCTTGAGGGAAAAGAGCTCCACAAGGAGAAGGCCGAGTGTGGTATTTGATAAGTGACACAGCTGAGGATCCTAGGATTGATGTTACCTGCGCGGGCTAATAACTTGGGGGATTTTTGGCTCGGTGCCTAGCTGTCCCCGTGAGTGGGGACAGCCCCTTGTGGAACTGGGAGTCAGAATTGCAGTTCTGCTGTTTCCTGGAAGTCCACAGCCAAGTTGTCTAACCTATCTGGGCTTCCTCATCAGCCAGCAGTATCTGTCTGTAATAGGATCGATACCAGGCTCAGATGGGATATAGAGTATAAATGCCACTTACCAATTTCGTTTTTTGTTTTTTAATTTCAG
Seq C2 exon
AAATGTTCTTTTGGGGCCAGAGTCTGGGCATATATGAATGCAAATCCGTGTTTGTTCACAACTAAGCCCAGCTGAGACGATCACTTTTCTGTAGGCCATTTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290-SETX:NM_015046:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)