HsaEX0016346 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32154462-32155452:-
Coord C1 exon
chr1:32155342-32155452
Coord A exon
chr1:32154651-32154686
Coord C2 exon
chr1:32154462-32154572
Length
36 bp
Sequences
Splice sites
3' ss Seq
CAAACCTTTTTACCCTGCAGGGA
3' ss Score
9.34
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGTGACCCCTGTGAAGTGTGCCCAACACTGCCTGAAGGGTTCCAGAACTTTGTTGGACTTCCTGGAAAGCCAGGGCCCAAAGGGGAGCCTGGTGATCCTGTACCAGCCAGG
Seq A exon
GGAGACCCTGGCATCCAAGGCATCAAAGGAGAGAAG
Seq C2 exon
GGGGAGCCCTGCTTGTCCTGCAGCTCGGTTGTAGGGGCCCAGCATCTTGTGTCCTCCACAGGGGCCAGTGGAGATGTGGGTTCCCCTGGCTTTGGTCTGCCTGGCCTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636_CASSETTE5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.973 A=1.000 C2=0.723
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(21.1=32.4),PF0139113=Collagen=PU(60.4=78.4)
A:
PF0139113=Collagen=FE(22.9=100)
C2:
PF0139113=Collagen=PD(12.2=16.2),PF0139113=Collagen=PU(25.4=43.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
CTGCCTGAAGGGTTCCAGAAC
R:
TACAACCGAGCTGCAGGACAA
Band lengths:
117-153
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)