HsaEX0016337 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32161689-32162901:-
Coord C1 exon
chr1:32162821-32162901
Coord A exon
chr1:32162564-32162689
Coord C2 exon
chr1:32161689-32161742
Length
126 bp
Sequences
Splice sites
3' ss Seq
CCCGCTCTTCCACCAAACAGTGC
3' ss Score
7.12
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
Exon sequences
Seq C1 exon
TTTGACCTTCAGCAGGTGCACATCTACTGTGACCCGGAGCTCGTGCTGGAGGAGGGCTGCTGTGAGATTTTACCAGCAGGG
Seq A exon
TGCCCCCCAGAGACCTCCAAGGCCCGCCGGGACACCCAGAGCAATGAGCTCATTGAGATCAATCCACAGTCTGAAGGCAAGGTCTACACCCGCTGCTTCTGCCTGGAGGAGCCTCAAAACAGCGAG
Seq C2 exon
GTGGATGCCCAGCTGACGGGAAGAATCAGCCAGAAGGCAGAAAGGGGAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'7-10,'7-8,8-10
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.421 C2=0.951
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0139113=Collagen=PU(12.5=38.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAGCAGGTGCACATCTA
R:
CTTTGCTCCCCTTTCTGCCTT
Band lengths:
130-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)