HsaINT0148418 @ hg19
Intron Retention
Gene
ENSG00000107290 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:445]
Coordinates
chr9:135211683-135218186:-
Coord C1 exon
chr9:135218077-135218186
Coord A exon
chr9:135211903-135218076
Coord C2 exon
chr9:135211683-135211902
Length
6174 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TAAATATATTCTGCATTTAGGTT
3' ss Score
7.93
Exon sequences
Seq C1 exon
ACGAGTTATGTGTTGAAGCACTTTGTCGGATGGAACAAGCCAATTGCTCCTTTCAGGTGTTTGATAAACATCCAGGGATCTATTTGTTTTTAGTCCATCCCAATGAAATG
Seq A exon
GTGAGTGTGAGTGTTGGGCGATAGAAGGGTATATTGTGCTTTTGTACCTATAGATAGCTATAATAGCGGTTTTTGGTGTGGATTTTGTTTAAAATGTTTGCTAAAATTTTTCTTGCTTTAAAATTTACTACAGTTAAGTAGAGGGCGCTCTGGGGTCAAAGAAGAGGGGATCTCAGAGGGTAGGGGATACTTACCGACAGGTGATGCTTGATCTTAAAAGACAAACGGGAATAACTTGATGTCCTTTCAGTATGTTGAATTGAACTCAAGAAGACCTCTTCTCTTGACTTTCTCACCTGCTTGACCCACTGCAGACACATGGAGATACCGGTTAAAACATTTGAAAAGTTATTTTGCTGATAGATTAGAATTAAAACAAGGGAAGGTAGGGAGGGAGACTGGGAAATTCTGGTGCTAGAGATGAAGAAGGACAAAATCCAGAACAGTGAGCAGGAACAGAAGCAGATAGCATTGAAACCTGACATAGCCCTTTGGCTAAGGTTTGAGATCTTGTCACCTTTTGTGGTAAGACAGTCTGTGCTTCAGGTCTCATGCCTAATGCCACCTAGAACTGAGTGACTACATTAAGCCAGTAGCCAGGAAGGGCTACTCTGCCAATGTAAGGCAAGAAAAATTACGTTTTTTAAAAAAAGCATGGTAATGGGATTGCCAGTCAAGATGATGGTGAATTTCAGTTTCCTCTGGGCCAAACACATACCAATGATATTAAAAAAAAGCAAAAGGAGGAAATTAAAGGGGTATAATCACATTCCTCCAAAGGAAAACTTATTTCTGTGGACCAGCAATGGAACAGAAACATGAAGTAATAAATGAGTGGAAACCTGGCCTGGGTGGCGGTGGGTAGCTCGGGATTCAGCTTGTGCAGGACAACAGGAATTAGAAGTATACTCCAGGCAAGGCAAAGAACCAAAGCCAAACTCTGCACTCCAAACAAGGGGCGGATGGGGGTGCTTCTTTGCCTGTGAAAGAAGGTTGCCAAAGTATTAAAAAGGTTCACTGGCTTTTTAAAAGCTGTTTACATATGGAGGAAGCAGGTCTGGTCTTGTAACCAGTGCCTGGGCGAAGCACTTGCAGCCTTGGTGACTGAGTCTGCCTAGCCCTTATGTAACCAAAGGTTGGGAGCCCTGAGCTGCTGATAGTAGACCTAGTTCTGGAGCAGGACTCTCAAGGATGGATAGAAAGCAGCCCAAATTTATATTTAGGAAGGGGAGGGGTAGTGGTAGGAGGGACACAGAATTCCTCCCTGTCGGATGAGCTTGCAAACCAAATCCCTGAAACACACGAGGAAAGCGCATGCTCTGACAGAACAAAGACCAGCACTGTTGGTCCTTTCTCTAGGTTTAACTCTAGAGGAACTTGAAAGAGAAAATGGAGAACATTGAGAGAAACTCTGAGTTGACAAGGGCTGGTTTATTAAAAAAAATTTTTTTTATTATTATATTTTATTTTTTGAGACAGAGTCTTGCTCTGTTGCCCACGCCGGAAGTAGAGACAGGGTTTCACCAGGTTGGCCAGGCTGGTCTCAAACTCCTAACCTCAAATGATGCACCCACCCCGGCCTCCCAAAGTGCTGAGATAACAGGTGTGAGCCACCACGTCCAGCCGACAAGGGCTGTTTTGAAAGGTGAATGTGGGAGATGGGGAGGAGAACATCCTTAGTTTGTGAATTCCTTTTCACTCTGGGGTATTGGGTCCTATCTGGCAGTGCCTGTGGGAGGCACTATGGAATTACCTCTCAGAGCATTCTCCCACAGCCAGAGAATAAAATGGGCTGTGGGAGAATAAAGTAGAAAAGGAACTGTTAAGGTTCTGCTTCCAGTTCTCCCTCATCATTGCCTTAGATGAATAAAACCTGCATCCAAATCTGTTCTCAACTAAAAGATCTGATCCAGGTGAAGGTAGGAATGAAATCAGCACAGTGGATAACCCCTAATATTTGTGAGGCACTGAGACAAGCAGGTGGAGACCAATTAACCACTGATAATTGCTTCATTATCATCCCCTCTTAACCCCAGGACTTGGGGGATTACAGCCCAGTAGTGTCTTCTAATGCTGCTTCTGCCCGGGAGTAAAGGGTGACGACCTGACTTAGAAAACTAAAATGCGTGGCAGTGAGTGAGTACGTTTTTCTGGCTTGGATTTTATCCATCACTCAGCCCTGAATTGATTGGGCATAAGCCAGTCTGGAGTCTGGCCTTCCATAGGCACCGCCTGATAGGAGCCAGTACCCCAGAGTGAAAAGGAATTCACAAACTAAAAATAATAGACATATGAGAAACATGAAGATTTCAGTAGAAGCAGATATATTAGGACACTTGTCCAGTAAATTTAAAATTATTATAGTAAACATGCTAGAAGAAATACGGGAAGATACTAATGTGAAATGAGAACTAGAAAACGTGAGAACCAACAAACCTACACATTGTGCACATGGACCCTAGAACTTAAAGTATAATTAAAAAAAAGAAAGAAAATGTGAGAACCAAGCCAAGTTGTTGTAACATTGAAAAATGAGATATTTAAAATAAAGGCTTCAGAAGATGGGATAGATAATACAGTGGGTACAGCCAAGAGAATGAGTGACTGTATTAGAAGACCAGAATGAGCAAATCCCTAAGAAGAAAAAGAGAAATAGAAAATATAAAAAGAAAAGCTAAAAGATAAATGGAGGGTAGAAGTAGTAGTGTTAACAAAGATGTAAGACGTCCCAGAAAGAGAAAAATAAAAATCAGGACAAAGAAATACCGGAGATATGGCTGGGCACGGTGACTCATTCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCGGATCACCTGAGGCCAGGAGTTTGAGACCAGCCTGGCCAACATGATGAAACCCTGTCTCTACTAATAATACAAAAAAATTAGGCAGGTGTGGTGGTGTGTGCCTGTAGTCCCAGCTACCTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGATGCAGGGGTTGCAGTGAGCCGAGATTGCAACATTGAACTCCAGCCTGGGCAACAAGAGCAAAACTCCATCTCACAAAAGGAAAGTTGTACTATATGGAAAGAGAGGTTAGATCCCTACCTTATTATCATTCATAATGACAAAATCTATCTAAAAAACCATAGTTAGGTTCAGTTTTCAAACTCTTTGCAGGAAATAGAGGTGTACAGCATTTAGATTGTAAGGTGAGGAAAGATTTGTTTTATTTTTTTGAGACAGGGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATGACAGCTCACTGTAATCTCTGCCTCCCAGGCTCAGGCATTTCACCAAAATCTCCTTCCTCGGTCACCATGCCCAGCTAATTTTTTGTAGAGATGGGGTTTCACTGTGTTGCCCAGGCTGGGTTCGAACTCCTGGGCTCAAGTGCCCCCATACCTCAGCCTCCCAAAGTGTTGAGATTACATGCATGAGCCACCATGCCTGGCCTGAGGAAGGGTTTTATAGAAACGAAAGCATTGATTATGAAAGGAAAGTTGATGAACTTGACTATATTAAAATGAAAAGTTATTGTTTATCAAAAAATACCATAAAGAGAGTGAAAATACTAGTTAAAAATTGGGAAAAGGGCTGGGCATGGTCGCTCATGCTCGAAAGCCCAGGCCTTTGGGAAGCCAGGGTTGGAGGATTGTTTGAAGCCAAGAATTCAAGACCAGCCTGAGCAACATAGCAAGAACCTATCCCTACAAAAAAATTTTTTTTTTAATTAGCTTGGCATAACGTTGCACACCTGTAGCCCTAGCTACTCAGGAGGCTAAGGTGGGAGGATCACTTGAGCCCAGGAGGTTGAGGCTGCAGTGAACCCTGATCTGCCAGTGCACTCCAACCTGGGCAACAGAGTGAGACTCTTTCTCAAAAAAATAAAGTAAAAAATTGAAGATAATCATATTACTAACAATACAAAAAATATGGATGAAGATCTGAACAGGCATGTCCCAGAACAGAAGAGGAACTACCAATAGCTAATAAATATATGAAGGAATGTTTTCTATTTAATGATCAGGGAAATAATAAGACCACAATGATATACCATTTTATTTTTGTGTGATAGCCTGAGAATACAATTTTGGAGAGGTCATGCATTTGCAAAACCTCTAGTTATTGCTGGTAAAAGGTCTTATTTAGCTGTCACGTCCATTTAGTCCTCTTTAATCTGGAACATTTCATTGTCTTACATGAAAATTACTTTTCTGAAGAATACAGTCATTCCTGCTCTGCCTCTTTTTAAAAAAATAAGTGAGGCTGGGCACGGTGGCTCATGCCTGTAATCCCAGCACTATGGGAGGCCGAGGTGGGTGGATCATGAGGTCAGGAGTTCGAGACCAGCCTGGCCAGCATGGTGAAACCCCGTCTCTACTAAAAATAACAAAAGTTAGCCGGGCGTGGTGGTGCACCCTTGTAATCCCAGCTACTTAGGAGGCTCAGGTAGGACAATGACTTGACCCCAGGAGGCAGAGGTTGCAGTGAGCCGAGATGGTGCCACTGCATGCCAGCCTGGGCGATAGAGTAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAGAGTGTTCCTCACTTTGGGTTTGTCTGATGTTTCCTCATGCATAGATTCAGGTTACACATTCCCAGCTGGAGTACCATGTAAGTGATGTTACTGTCCTTCTCAGCTTGTCATATGTAGACAGAGGCACGCCATATCCTTTGCAACTCATGGTGATGTTAATTTTGAGCATTCGGTGAAGGTGCTGTCCCATTTCTCTGCTGTGTAATTTCTATTGTTTAGATACTTTAAGACCATGTAAATACTATGCATTTCATCAAGATCTCCTAAATTTAGCATTCATTAATGTGTCTTGCCTGAACTATGGTGATTGCAAGATGGTCATTTCCTAACTCCAGCACTCTCCATGTTTACTATTTACCACTTGACATTGATTGTACAGTAATCAAGAGTCTTTTCCCCTTCTACCACTTATTATCAGTAAGGTCTCATGGATTCCAAAACTTTTTCAGTAGTTTATAATTTGTTGCTTATGTTGGCATAGAGCTCATGCTTTTACCTGTGGGGTCTGTGTTTTTCCAACTTTTTGATTACAATCTGTAGTAAAAAATGTTTTCCTTGTGTATGCATATGCCTATATAATGTATTTTGTAAAATAATACTTTTACTATGAAGGATGCACTCTTGATATTTTTCTGTTCTTGTTTTTTTTTTTTAAGGTTGGTTGTGAGCACTAAATTTAATTCATAGTCTCCAAGAAATTTAAAATCACTTCTTTATGCTATTCTGCCATTTAGAAATGCCCTTTGATTTCTTTTGAGATTCCTCATTTTGTGTTTTCTTTCCTTTTTTGGACATTCTGTTATGGAAAATGATAAACATAAAAGTAGCAAGAATGGTGTAATGAATCCCCCATAATCCATCAGTTAGCTTTATCAATACATGGTCAACATTCCACTCCCCTTTAGATTAGTTTAGAGCAAATCTTAGATATCAGAGCATTTCATCCACAAAATATTTCAGTATGTATTTCTAAAAGATAAAGACTTAAAAAAAACGAAAAATATTATTATATATATATTTTTTGAGATGGAGTCTTACTCTTGTCGCCCAGGCTGGAGTGCAGTGGTAGGATCTTGGCTCACTGCAACCTTTCCCCACCAGGTTCAAACAATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGAGTGCACCACCAAGTCCAGCTAATTTTTTTGTATTTTTAGTAGAGACAAGGTTTTGCCAAGTTGGCGAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCTGCCCGCCTCAGCCTCCCAAAGTACTGAAATTACAGGTGTGAGCCACTGCACCCAGCCAGAAAAATACTATTATTGCATCTAAAAGAATAATTACTTAATGTTGTCTTGCCAGTCAGTGTTTGAATGAATGGAAATGATTGTCTAAAACTGTTTATTAGGGGTTAGTATGTTCAAATCAGGATCAAATAAGGTCCACACATTGCATTAATTAATATGTCACATGTCTTTTAAAATATGCAGAGAATCCTGTTTTCTTTTCTGTGTTCTTGCTGTTTGTAGACCATTGTTTATTGAATTAAGTAATAAATATATTCTGCATTTAG
Seq C2 exon
GTTCGGCGTTGGGCTATCTTGACTGCAAGAAACTTGGGGAAAGTGGACAGAGATGATTATTATGACTTACAAGAAGTTTTACTTTGCCTTTTTAAAGTCATTGAGTTGGGGCTTTTAGAGAGTCCAGACATTTATACTTCTTCTGTCCTAGAGAAGGGTAAACTGATTCTTCTGCCCTCACACATGTATGATACTACCAACTACAAAAGCTATTGGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107290-SETX:NM_015046:5
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:
PF127262=SEN1_N=FE(13.8=100)
A:
NA
C2:
PF127262=SEN1_N=FE(28.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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)