HsaINT0148413 @ hg19
Intron Retention
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:445]
Coordinates
chr9:135147097-135150807:-
Coord C1 exon
chr9:135150643-135150807
Coord A exon
chr9:135147196-135150642
Coord C2 exon
chr9:135147097-135147195
Length
3447 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TGTTTCTCTTTTGTAAATAGACC
3' ss Score
8.08
Exon sequences
Seq C1 exon
CTCATATATAAATGTTCAAGAAATAAAACTGGTGATGGAAATAATTAAGCTTATTAAAGACAAAAGAAAGGATGTTAGTTTTCGAAACATTGGCATAATAACTCATTACAAGGCCCAGAAGACGATGATTCAGAAGGATTTGGACAAAGAGTTCGATAGAAAAGG
Seq A exon
GTGAGGCATTTTTATAAATATTTCCAATTTTCTTGTTGAATTAGAATGAGAGGATATAGAAGGAAAGAAGAAAAGGGAAACTCTTAAGGAGTGGTCTGTGCAAATTGGTGATACGGCACGAGGAAGCTGGGATGCTGCTGGCTTTCATAGACTTGTGCTGTGTGGCTCCTGGGTAGACAGGTTACTTCCTGGCAGTTGGAATGTCAACATTCTCCTTGGCAGTGGAATTGACTAAGAAACTTGCCAGGTCTTTACCTTTTAGTTCCATGACTTGTTCATCTGAATTCTTGTTCTAGCAAGACTAAAAGTAACATTTCACTTTAAATAAATGATTTAACCCTTGTATTGCCTTTATGTATAGAATGAAAATCATGTTTTTGTTTCCTTCTTACCTCAGCAGTAAAATTAAAGATTAAATATTGGAGATCCATAACCTTAAAATCATCTTAACTTAGAAGCACACAGACTACCAAAATCGAATCTAGAAAACAATAGAAAATCAGACCTGTAGGCTGGGTGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGCAGATCACCTGAGGTCAGGAGGTTGAGACCAGCCTGGGCAACATGGTGAAACCCCATCTCTACTGAAAAAAAATACAAAAATTAGCCAGGCGTGGTGGCGCGCTCCCGTAGTCCCTGCTACTCGGAAGGCTGAGGTAGGTAAATCGCTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCTGAGATTGCCCCACTGCATCACTCCAGCCTGGGTGACAGAGCGAGACTCCATCTCAAAAAAAAAAAAAAAAGAAAAAATCAGACCTTTATAACAAATAATGAAACATTTCCCAATAATGAAAAGCCCAGAACCAAGCTAAGCTGGTGAATTCTATCAAATATTAAAAGAAGAATGAACACAAGTCATTCTCACATGCTTCCAATAAATAGAACACTCAGATTCATTTTTTGAAGCCAGTATTACACTGATACCAAAGCCAAGGGAAAGTATCACAAGAAAACTACAGATCCAAATCCTTTATGACTAGATACAAAAATCCTCAACAAAATAGTGACAAACTGAATTCAGCAGGTTATTACAAGGATTTATACATCAAGACCAAGTGGGATTTATCCCAGGAATGCAAGATTGCTTCAACATATGAAAATCAATATGATATACCATATTAGAAGAATGAGGAGACCCACATAATCAGCTCAGTAGATACAAAAAAAAGTTGCACGGAACCCAAAATGCTTTGATGATTTAAAAAAAAAAAAAGAATACAAAGGAACTTTTTTTATTAATAAAAGGCATTTACAAAAAACTCATAGCTAACGTTATACTTCATGGTAAGAATGAAAGCCTTTCCTCTAAGATCAGGAGAGATGTTTGAAACTCTTAATGCTTTTTTTCAACATTGTACTAGAGGTTTTAGCCAGAGCAGTTAAGTAAGGAAAATAAATAAAAAGCATCTTTACTGGAAAGAAAAAAGTAAAACTCTCTCTTCATAGGTGGCATGATCTTATTTCTAGAAACCCTAACAAAGCCATTCAAAGGCACTATTAGAGATAATAAGCTTAGCAGGATACAAGATTAATATGTGAAAGTTGATTATATTTTGATGCAACTAGCAATGAACAATCTGAAAAGGAAGTTGAAACAATTCCATTTACAATAGCATCAAAAAGAATAAAACACTTCGGAATAAATAGAACCAAAGAAGTATAAGACTTGTACGCTGAAAACTGCAAAACGTTGTTGAAAGGAATTAAAGAACACCTAAATAGGCCGGGTGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCCAGGTGGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTAAAATCTTGTCTCTACTAATTATACAAAAATCAGTTGGGCATGGTGGCACACGCCTGTAATCCCAACTACTCTGGAGGGTGAGGCAGGAGAATCACTTGAACCCGGGAAGCAGAGGTTGCAGTGAGCTGAGATCACTCCATTGCACTCCAGCCTGGGCGACGAGAGCGAAATTCCATCTCAAAACAAAAAAAAAACCACCTAAATAAATGTGAAGACATCCTGTTTTCATGGACTGGAAGACTTAGTGTTGTGTTGTTTTTTGCATTTTTTGTGTGTTTTTTCATTTTTAGTAGAGACAAGGTCTTCCTAAGTTGCCCAGGCTGTTCTCAAACTCCTGAGTTCACACAGTCTTCCCAAAGTGCTTGGATTACAGACATGAGCTACCATGCCCAGCCAAAGACTTAGTATCAGCGTGACCATTTCTGTAAAAAAGGCAGTTGGATTACATCTGTAGATCAATTTGGGGAGCGCTGCCACCTTAACACTAAGTAAATAACTTGTACTATGTGGTACAATGAAATATTAATGAAGAAAGGGATGAAGTTCTGTTACATGCTACAACATGGATGAACTTTGGAAATGTTATGCTAAGGGAACAGTCACAAATAATCACATTTTGTAATTCCATTTATGTGAAACTCACAGTATAAGAAAATCTGTAGAGACAGGAAGTGTATTAGTGGTTGCCAGGGAATGGAGAGAGGAGGAAATTCAGGCTAACCTCCAAGAAAATGTTTTTAAAATGTCTTAGCAGCCGAGCATGGTGGTGCATGCATCTCCTTGGGAGGCTGAGGCAAGGAGGATTGCTTGAGCCCCAGAAGTTTGAGTCCAGCCTGGGCAACGCAGTGAGACTCTGTCTCTCTCTCTCTCTCTTTTTTTTTTTAAGTTTCTTTAAAAATAAAGACTGTAAGGCCAGGCATGGTGGCTCACATCTATAATCCTAACATTTTGGGTGGGTGAGGTGGAAGGATTGCTTGGGGCCAGGGGTTTGAGACCAGCCTGGGCAACATGGCAAGACCCCATCTCTACAAAACATGGAAAAATTAGGGTGGTGGTCCATGCCTGTAGTCCTAGCCACTTAGGAGGCTGAGACGGAGCTCAGGTGTTCAAGTTACTGTGAGCTATGAATATGCTGGTGCACTCCAGCCTGGACAAGAGTGAGGCTAGACTGTCAAAAACCAAAAAACTAAGCCGGACGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCATGAGGTCAGGAGATGGAGACCACAGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCTGGGCATGGTGGCGGGCACCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCAGAGCTTGCAGTGAACTGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAACCAAAAAACTAGTTTATAAATATGTATACTTAATAATTATCTTCCTTTTTCCAGTAAATATGTTTCTCTTTTGTAAATAG
Seq C2 exon
ACCAGCAGAAGTAGACACTGTGGATGCATTCCAGGGTCGGCAGAAGGATTGTGTTATTGTTACGTGTGTCAGAGCAAATAGCATCCAAGGTTCAATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290-SETX:NM_015046:23
Average complexity
IR-S
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(38.5=100),PF130871=AAA_12=PU(15.6=8.9)
A:
NA
C2:
PF130871=AAA_12=FE(16.3=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:
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)