HsaALTA0008961-2/3 @ hg19
Alternative 3'ss
Gene
ENSG00000108448 | TRIM16L
Description
tripartite motif containing 16-like [Source:HGNC Symbol;Acc:32670]
Coordinates
chr17:18627083-18631015:+
Coord C1 exon
chr17:18627083-18627144
Coord A exon
chr17:18630935-18630936
Coord C2 exon
chr17:18630937-18631015
Length
2 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CAATGTGATGCTCTTCTTAGAGG
3' ss Score
4.68
Exon sequences
Seq C1 exon
GCTCCTTGAATGTATTGAGGCCTCTCCTCTCTGTACTATTTCTGCTTGTCATCATTTTCGTG
Seq A exon
AG
Seq C2 exon
GAGAAGGAGCAAGCTGCGCTGAGCCAGGCCAACGGTATCAAGGCCCACCTGGAGTACAGGAGTGCCGAGATGGAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108448-3-8,3-7,3-6-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. ATG)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.062
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0387411=RNA_pol_Rpb4=PU(52.9=80.6),PF041637=Tht1=PU(57.5=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCTCTCCTCTCTGTACTA
R:
ACTCCAGGTGGGCCTTGATAC
Band lengths:
100-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)