HsaEX6029684 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32157199-32158110:-
Coord C1 exon
chr1:32158075-32158110
Coord A exon
chr1:32157606-32157668
Coord C2 exon
chr1:32157199-32157243
Length
63 bp
Sequences
Splice sites
3' ss Seq
TCTGCTTCTTCCTTCCCCAGGGC
3' ss Score
12.24
5' ss Seq
GACGTAGGT
5' ss Score
6.78
Exon sequences
Seq C1 exon
GGACCCTCAGGACTCCCAGGCTCAACAGGCGAGAAG
Seq A exon
GGCCAGAAAGGCGAGAAGGGCGACGGAGGCATCAAGGGCGTGCCGGGAAAGCCAGGCCGGGAC
Seq C2 exon
GGCCGGCCAGGAGAGATCTGTGTCATTGGGCCCAAAGGGCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'18-20,'18-19,19-20=AN
Average complexity
A_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(19.3=100)
A:
PF0139113=Collagen=FE(35.1=100),PF0139113=Collagen=PU(20.6=66.7)
C2:
PF0139113=Collagen=PD(12.3=46.7),PF0139113=Collagen=FE(20.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGGACTCCCAGGCTCAA
R:
CTTTGGGCCCAATGACACAGA
Band lengths:
68-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)