HsaALTA0008961-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000108448 | TRIM16L
Description
tripartite motif containing 16-like [Source:HGNC Symbol;Acc:HGNC:32670]
Coordinates
chr17:18723770-18727702:+
Coord C1 exon
chr17:18723770-18723831
Coord A exon
chr17:18727525-18727621
Coord C2 exon
chr17:18727622-18727702
Length
97 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
GTGTCGGTGTCAGAGGTCAAAGCAGTGGCTGAAATGCAGTTTGGGGAACTCCTTGCTGCTGTGAGGAAGGCCCAGGCCAATGTGATGCTCTTCTTAG
Seq C2 exon
AGGAGAAGGAGCAAGCTGCGCTGAGCCAGGCCAACGGTATCAAGGCCCACCTGGAGTACAGGAGTGCCGAGATGGAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108448-13-33,13-32,13-31-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.043
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0387411=RNA_pol_Rpb4=PU(52.9=80.6)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
TCTTCTCCATCTCGGCACTCC
Band lengths:
143-240
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