HsaALTA0008938-1/3 @ 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
NA
Coord C2 exon
chr1:211533254-211533418
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
CCTGTTGTTATCTGTTGCAGGAT
3' ss Score
10.66
Exon sequences
Seq C1 exon
GTTTTTAAAGACAATTGTTGCAAAAGAGAAGTCCTCAACTTATATGTATATTGCAGCAATGCTCCTGGATGTAATGCCAAGGTTATTCTGGGCCGGTACCAG
Seq A exon
NA
Seq C2 exon
GATCACCTTCAGCAGTGCTTATTTCAACCTGTGCAGTGTTCTAATGAGAAGTGCCGGGAGCCAGTCCTACGGAAAGACCTGAAAGAGCATTTGAGTGCATCCTGTCAGTTTCGAAAGGAAAAATGCCTTTATTGCAAAAAGGATGTGGTAGTCATCAATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000082512-7-11,7-10,7-9-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (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 Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
114-144
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)