HsaEX0016336 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32134403-32137260:-
Coord C1 exon
chr1:32137216-32137260
Coord A exon
chr1:32136203-32136247
Coord C2 exon
chr1:32134403-32134456
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTGCCTGTTTCTCCCACCAGGGC
3' ss Score
11.94
5' ss Seq
CCTGTAAGA
5' ss Score
4.07
Exon sequences
Seq C1 exon
GGTCCGCCTGGCATGAGGGGCTCCCCGGGTCCTCCAGGCCCTATC
Seq A exon
GGCCCCCCAGGTTTTCCTGGTGCTGTTGGCTCCCCCGGATTGCCT
Seq C2 exon
GGCCTTCAAGGAGAGCGAGGTCTCACGGGCCTGACTGGAGACAAGGGGGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'64-64,'64-62,65-64
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.6=100)
A:
PF0139113=Collagen=FE(20.6=100)
C2:
PF0139113=Collagen=PD(13.2=50.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGCCTGGCATGAGGG
R:
CTCCCCCTTGTCTCCAGTCAG
Band lengths:
95-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)