HsaINT0119198 @ hg19
Intron Retention
Gene
ENSG00000172939 | OXSR1
Description
oxidative-stress responsive 1 [Source:HGNC Symbol;Acc:8508]
Coordinates
chr3:38293819-38296979:+
Coord C1 exon
chr3:38293819-38293883
Coord A exon
chr3:38293884-38294307
Coord C2 exon
chr3:38294308-38296979
Length
424 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTC
5' ss Score
2.63
3' ss Seq
TCATTTTGTTTGGTTCTTAGGCA
3' ss Score
8.51
Exon sequences
Seq C1 exon
TGGCAGCTAATTTGCAGAAAATTGTGGAAGAACCTCAGTCAAATCGATCTGTCACTTTCAAACTG
Seq A exon
GTACTCATCCCTTCTTCCTTGTGAAAACATCTTGCCTTTTATACACTGGCAGCTTCTCCAGACCAGCTTCTATATCCCCTGAGTGATGAGAATATTAAAATGTGGTGGATTGTGTTCATTTAGCCTCCCCAGTGCCCTGGGCTGATGTTTCCCTTTGAGTGGCCACTCTTCCTCTGTCCATGCCAGGAAACCTCTGACCCCAGAGACCCTTGGCTATTCATAAGAGAAACTATTAGCCAGTCTGACTCTAGCTGTTTACCCAGCCCCCCTCTTTTCTGGAATAAACACCTTCGTCAGTCTCCTATTTGTATCCTAGGGACCTGTTGCCCACTGCCTACCTTCCCACTATCCCATGTCTGTTTTATTTGCTACCTGCAAGTTTGTTTATAAATAATCACAGTTTCTCATTTTGTTTGGTTCTTAG
Seq C2 exon
GCATCTGGTGTCGAAGGCTCAGATATTCCTGATGATGGTAAACTGATAGGATTTGCCCAGCTCAGCATCAGCTAAACCACAACCCTGGAAGAGGCGGCCTAAGGAGATTCCACACATGCGTATCTCTGTTGCTTCTATTGGCCTAAACCCACTACTGCCAAAGAACCCAGCAACAAACCTCCCGGCTAGGAGCTTTAGAAGTCTTTATGTTCTTCCTGCCATCATTCCTCCTTTTCCCACAGGGAAAGAAAAGTTGGATCACTAGTGGCCAGCATCCCCAGAGTTCCGTTAGTAAACTTACTTCATATGTCCCCTGTCTTCCTCCATCTGAGAAGTGGCCCATGTGCTTCAAGGCCCAGGAGGGAGATCTGTCAGCTCATTCTTGCCTTACTCCAATGATGGCCCAGGTGGAAAAGTAGCAGCTGTATCGGGCTTCCTCATCCTGCCTGTTCCCCCACACCTGCCAGGATATGGACATCTTGGGATATCTCTTTACCACTGAAGTAGAATTGATTGTTCAGCTGGAGCCCAGAGAATTTAATTTAATGTTTTTTCTTTGTACCTGATGTGAATTCTAGCAACCTTTGTTAGGAAAAAGCACAGCCTCAGATGGAGGCAGCCTAAACTGTGTTCTTGTTTTGTTCATGGTGTTTCTAAGCGTTTTGCTGAAGCTGCTCTCAGGCACCCCCTTCTTCATTGCTCTCTCCAGAAAGGGTTGCTAGCCTTAACTTCAGCTGGTGCAAAACATCTGACTGTAGCCGAACTTCAGCCATCAGATCCTTCAAAGTGGAACTTTGGATTGTTTTTACAGACAACATCGAGTAATGGCTTGTAAATGTGAATTTTGCCAGAGGTGGTTTTTGAACAGGAAAATCATAATTCATATCATTGGAGAAGTATTTATTTTCAAATATCAAATTGAAGAAAAACTCAATCCTCCCATGAAAATCAGTTCGCCTGGCCTCCAAGTCGTGAGGAAATGGGTATGCAAGGCTGAGATTTCTACAGCAATAAAGGAGACACACACTGGGCCAGAGAGGCCTGCCTTCTGCCTGCTCTCCTGCACTGACCCTTTGGAGGGGGTCTCTGTGTGCTGAAGCTAACTCAAGATGGAAAGTGAAACCACATGTGCCGTGACCTTTAGGTTTTATGAGTAGACAGTGTTCATTTGATTTTCTACAGAAATAATATAAATTATTCTTTAGGTTTAAAAAAGAGCACTCATAATGCAATATGTGAATAATCAGTGAGGTTGATTTTTCTTTTTTCCTACCGTTTCATAGTCTTTGTCTAACTGCTAGTAACCCTACCGAGTTTTATATATGAGTGGGATACTCAATCTGGCCTTAAAAAGATACACAAAGATGGGCTGTGGGTCCCTGGAAAGGGGGAGAGTTGCCCTTTACAGAATCACTCGAGCCCTTTCCAGCACTGTTGGTCTGATGAACAAGGTTGTTTTACCTTATTTTCTCTTGGAACATATCTGAAAACCTTCCCCACAAATAACTTGTCACACCTTTTGTTTCATTCTGAGTCTTTAGTTTTAGTCATGGGCTTTCTTCACCTGCTCTAGGTGCAAAGGCATGTTGGGAAAGAGATGGATGTTGGGGAGGAAGAGAGGAGATGGATTTCAGTTGGGAGTTAGGAGGAGAGTAGGTGAGATGATCAGACACCGGAGTTCAACGTCCCAGCAGTCTTGGTAAAAGGAGGGAGCCTGCTGAGCCAGGAGGGAGAAAAGAAGATTGACCAGCTTGCTAGAAAAATACTTAGCTTTTCTTTTTCTTTTTTTGTGGAGGGGGGACGGAGAGGAACAAGGATGGGGAGGTAGGAATGAGGTATAGAAAAGAGATAGCATCTTCTTTGGCACAAGACTAGTGGCTTACCGCTTACCTTAGAGTTTTGTTTTTTTTTTTTCAAACCCATCAAAATCTACTTATTTATGAATCCAAGGGGTGGCAGCATCACTCTGTTCTAGCATTCTTTGTGGAGATGGTCTGGTGCCTAGCTGGGAGTGAGCAGCAGCCCATCCCCTGTTCACTTTCTCTAGCCCATCATTACCTGTGAACTGCAGTGGGGCAGTCATGGCAAATAGAATTGGGCTGGGGTTTCTCCTTCTTTTCAGTTCATTGTTTGCCCTGCTAGGAATTAGAAGACAGACACCATGTCCCAGGACAGTGTTACTTCTTCTGCATGATGTGTGGTAGACTCCCTTTGCTGGCTTGTGCAGTGATACTGAGAAAATACATGAACAGAAACTGCCCAGGTGGAACAGCACGTAACCTAGTGAGTGACTGTACTCCTTTCTAGGAATGCTGATTCAGAGTGCACCTCTTTGACTAGGTCCCAGGATCCCCTTGTCCCTGGAGTAGGGACTAACTATAGCACAAAGTAATATGTGCCAATGCTATTTGTGAAATGTTTGGTCTTTCTAAACGACTAAAGGATTTGTTGGGTTTTTGCTTAAGTTTTGAACCAAATCCTAGAGCCAGCTGATAATATTTAATAATCTGGAGGAGAGAATAATGATGTACCAATAAGTGGAGATTCCTCCTTATGATGTATGCTAGGTTATGGAAGATGTAAAATATTCAACTTTTTCCTCCTTTTTTTGGACTTTGTATTTTACTGCATGTTTTCTTCATTTTTAATCAATAAAGAGTAAATTGTCCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172939-OXSR1:NM_005109:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGAAAATTGTGGAAGAACCT
R:
TAACGGAACTCTGGGGATGCT
Band lengths:
344-768
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)