HsaALTA0008938-3/3 @ hg19
Alternative 3'ss
Gene
ENSG00000082512 | TRAF5
Description
TNF receptor-associated factor 5 [Source:HGNC Symbol;Acc:12035]
Coordinates
chr1:211529709-211533418:+
Coord C1 exon
chr1:211529709-211529810
Coord A exon
chr1:211533221-211533253
Coord C2 exon
chr1:211533254-211533418
Length
33 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TTTCCTACCACCCTGGTCAGCAG
3' ss Score
1.95
Exon sequences
Seq C1 exon
GTTTTTAAAGACAATTGTTGCAAAAGAGAAGTCCTCAACTTATATGTATATTGCAGCAATGCTCCTGGATGTAATGCCAAGGTTATTCTGGGCCGGTACCAG
Seq A exon
CAGGTCCCACTGGCCTGTTGTTATCTGTTGCAG
Seq C2 exon
GATCACCTTCAGCAGTGCTTATTTCAACCTGTGCAGTGTTCTAATGAGAAGTGCCGGGAGCCAGTCCTACGGAAAGACCTGAAAGAGCATTTGAGTGCATCCTGTCAGTTTCGAAAGGAAAAATGCCTTTATTGCAAAAAGGATGTGGTAGTCATCAATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000082512-7-11,7-10,7-9-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF059116=DUF869=PU(4.5=26.5),PF086146=ATG16=PU(13.9=32.4)
A:
NA
C2:
PF059116=DUF869=PU(8.0=38.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGCAGCAATGCTCCTGGAT
R:
GCTCCCGGCACTTCTCATTAG
Band lengths:
114-147
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)