HsaINT0171755 @ hg19
Intron Retention
Gene
ENSG00000082512 | TRAF5
Description
TNF receptor-associated factor 5 [Source:HGNC Symbol;Acc:12035]
Coordinates
chr1:211534044-211534504:+
Coord C1 exon
chr1:211534044-211534121
Coord A exon
chr1:211534122-211534429
Coord C2 exon
chr1:211534430-211534504
Length
308 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
TGTGACTATCCATTTCGTAGGTA
3' ss Score
7.76
Exon sequences
Seq C1 exon
AATCATGAGGAAAACTTGTGTCCTGAATACCCAGTATTTTGTCCCAACAATTGTGCGAAGATTATTCTAAAAACTGAG
Seq A exon
GTAACTGCAAATAATCCTCTCTGTAGATTTTATGGAAGATAACGTTTTAGTAATCATTGTGGTCTGTGTTTGATACAGTCCCAAAGATAAGGGCCCAGGGCTTAAATTACACGCATGACCATGACGTATCTGTCTTCCCTTCTCTTTTTCCTGCGAACTCTCTTCAACTTTCATCATAGCTCTTTCTTGCCAGGCCTCTCTCCTTCTCCTGGTCCTTGCCTTCTTCCCAAGCCACTCTTGGCTCCCTGATTGCTGCAGTTGGAGAATAAGTGATGAATTTCTATAGCTTGTGACTATCCATTTCGTAG
Seq C2 exon
GTAGATGAACACCTGGCTGTATGTCCTGAAGCTGAGCAAGACTGTCCTTTTAAGCACTATGGCTGTGCTGTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000082512-TRAF5:NM_004619:6
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:
PF0217613=zf-TRAF=PU(40.7=92.3),PF059116=DUF869=FE(9.6=100)
A:
NA
C2:
PF0217613=zf-TRAF=FE(40.7=100),PF059116=DUF869=FE(9.2=100),PF086146=ATG16=PU(8.1=24.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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)