HsaEX6029697 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32146624-32148848:-
Coord C1 exon
chr1:32148795-32148848
Coord A exon
chr1:32148535-32148603
Coord C2 exon
chr1:32146624-32146668
Length
69 bp
Sequences
Splice sites
3' ss Seq
TTGTACCTTCTCTTACACAGGGA
3' ss Score
8.72
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGACTTCCGGGACCTCGGGGACCACCTGGCCCCACTGGAGAGAAGGGTGCCCAG
Seq A exon
GGATCTCCAGGGGTGAAAGGAGCCACCGGACCTGTGGGACCTCCTGGGGCCAGTGTCTCTGGGCCTCCG
Seq C2 exon
GGCCGTGATGGGCAGCAAGGACAGACGGGACTCAGAGGAACACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'47-48,'47-47,48-48=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(29.3=100)
A:
PF0139113=Collagen=PD(28.6=78.3),PF0139113=Collagen=PU(26.5=56.5)
C2:
PF0139113=Collagen=FE(25.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCACCTGGCCCCACTG
R:
GGTGTTCCTCTGAGTCCCGTC
Band lengths:
79-148
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)