HsaINT0171670 @ hg38
Intron Retention
Gene
ENSG00000056558 | TRAF1
Description
TNF receptor associated factor 1 [Source:HGNC Symbol;Acc:HGNC:12031]
Coordinates
chr9:120923705-120926301:-
Coord C1 exon
chr9:120925936-120926301
Coord A exon
chr9:120923793-120925935
Coord C2 exon
chr9:120923705-120923792
Length
2143 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTTTGTCCATGTTTCCCCAGGAA
3' ss Score
11.19
Exon sequences
Seq C1 exon
CCTTCAGTCACCATCCAGGGGATTTTTATCGCCACAAAGGGTAATTCCTGCTCCATCCCTGCTGTGACTCAGCTGTGACGTTGAACCACACAAGCCAGAGAGAAGAAGATAAAGTCATCAGAGCTCCTACTCACCAGAGAGTGAGGCCCAGGCCAGGACTCCACAAGGCTGGTCCCCTGCCCTGGAGCAACTTAAACAGGCCCTCTGGCCAGCCTGGAACCCTGAGATGGCCTCCAGCTCAGGCAGCAGTCCTCGCCCGGCCCCTGATGAGAATGAGTTTCCCTTTGGGTGCCCTCCCACCGTCTGCCAGGACCCAAAGGAGCCCAGGGCTCTCTGCTGTGCAGGCTGTCTCTCTGAGAACCCGAG
Seq A exon
GTGAGGTGATGGAGGAGCGGAGGGTGGGCAGAAAGTGGGTGCCAGGGAGGGACCCCTGATGGGAGGTGAGGGGCAGAGGAGCCTGTGACTTCAGGCGGTGACTTTTCTTCTCTGGGCCTCAGTTTCCACACCCTTTTCTCACACTCCCTGACACTGCCCCTCTGGCTGTGGTGGAAGGAGAGGAAGCCACAGAAAGGCATCAGCTCCCACAGGGGAAAGCCATCCACACCGAGGAGAGCCTCGAGGCTGTGAGGCCACTGTCTCACTGTGTGGTCTGGTGCTCTGCTAATGTCCCTAAGCCGCAGCTCGCTTGTCTGTAAAGCTGTTTTCTGTGTCATAGAATTGTTAATGAAGCCCAATGAATAATAATCACAAAAGTCCTTATAATAACAAATATAAACCTCTTGGTGAATGACAAACTGTTAGACGAATATCTCTCCTTCCACAGCATTGCTCATCACCTCAGACCGTTTGCTGGGAACCCTTTTGGAGGGGACAAAGAGATCGATATATATTTGTGTATTTAATGATACTTAAAATATTAACAACCCAGAAAGGCATGATATCAGTACTATTGTGGACATCCCTCTTTAAGCAATTATGCACCTACTGTGTGCCAAATGCTCTGCCCTTGGGTCCTCAGCACAACTTAGAGGGGTGGATACTATTATGATCCTATTTTACAAATGAGAACACTGAGGCCTAACAGATTAGGTCAGCTTTGGTCAGTTTCCTGGCAAATATGCCCTTAAACTATCTCATGTGATGACCTTTTGTTTGCGGTTTTACAGCTTAAGAAGGTGGCAAAGCTGAATCAGGCAAGTGAGAAGTTCAAACATGACGACAAAGGAGGAGGCTGTGAGAATAGCGAGGAGAGGCTGTGGCCGTGGAAAGGCCAGCCAGGAGGTGGAGGAGCAGAGGTTCACTGGTTTTACCATCAAGCGGATTGTCAGGGTTCAGCTCAGGCTCTGGTAGTGGGTCTCCTGGTTTCCCCTCTCCCTCCTTCCAAAACCTGGCAGAGGAGGGAGCTGATTGGAAGTTGGAGGGCTGAGGCCTGAGGCCTAAGTCCTGAAGAGCTTCTACTCAGCTCTGCTCCTGACTCACTCTACCTTGACCAATCCACATGCCCTCTGGGGCCTCATTCCCTCACTTGTAAAATAGACTATCTCGGTAGCGGTAGCAGGTCAGAGACACCAGGAGCTTTGTAAAAACACAGTTGCTGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGCAGGCCGAGGCAGGAGGATCACTTGAGGTCAGGAGTTTGAGACCAGCCTGGCCAACAAGGTGAAACCTCATCTCTACTAAAAATACAAGAATTAGCTGGGTGTGGTGGTGTGCACCTGTAATCCCAGCTACTTGGGAGGCTAAGGCATGAGAATCACTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGCTACAGAGTAAGACCCTGTCTCAAAAAAAGAAAAACCCCCAAAAAACAGACAAAAAACCCACGGGTACCCAGGTGTTACCCATTAGAATCTGACACCCATTCCTGATTAAGAACCTCTAGGACAGATGTTCTCTGAGGCCCTTTCTTGTTCTAATAGGCCATGATCCTCTGTAATTACTAAACATATAAGACCAAAACCAAATGGAGGACCAAATGAGAAGAGCAAATATAGTCACATGTCAGCAATCTTTTGCCTAAACCCCTGAGATCAGATGTGTTTTGTAATTCAGAATTTTTTTTAGAAAAGCAAATCAGGGCATCATGTAATTGTGGCAGGGAATGCGGCAGTGCCCTGTAATCAAGCACATTAATGTTTCTGCAATGAAACATGTATATATTCACACTAAGTGGGGCAAGTAAGGGCTATAATAGCTTCCGGTCAGTGCAGTCACGGCAGGTTTGGCAGCCCAGGAAGCTCACTGCAAACTACCAAAAAATGTGGGATACTCGGCAGTTTTGCGATTTAGGAACTGTGGCTCTGGGATTGTGGACGTACATGATCACCACCCTGCTGATAGTTGAGGCTTCTGGAGCTGTCAGGAGAGTGGATGGTGCAGGGAGCTGTAGTGCCTCTCTCCAAGGCTTTGTCCATGTTTCCCCAG
Seq C2 exon
GAATGGCGAGGATCAGATCTGCCCCAAATGCAGAGGGGAAGACCTCCAGTCTATAAGCCCAGGAAGCCGTCTTCGAACTCAGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056558:ENST00000373887:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.372 A=NA C2=0.467
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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