HsaALTA0008961-3/3 @ 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
chr17:18630838-18630936
Coord C2 exon
chr17:18630937-18631015
Length
99 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CCACCCCCACCCCCCGCCAGGTG
3' ss Score
8.66
Exon sequences
Seq C1 exon
GCTCCTTGAATGTATTGAGGCCTCTCCTCTCTGTACTATTTCTGCTTGTCATCATTTTCGTG
Seq A exon
GTGTCGGTGTCAGAGGTCAAAGCAGTGGCTGAAATGCAGTTTGGGGAACTCCTTGCTGCTGTGAGGAAGGCCCAGGCCAATGTGATGCTCTTCTTAGAG
Seq C2 exon
GAGAAGGAGCAAGCTGCGCTGAGCCAGGCCAACGGTATCAAGGCCCACCTGGAGTACAGGAGTGCCGAGATGGAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108448-3-8,3-7,3-6-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
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)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTTGAATGTATTGAGGCCT
R:
CTCCATCTCGGCACTCCTGTA
Band lengths:
137-236
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)