HsaEX6029702 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32140608-32145286:-
Coord C1 exon
chr1:32145233-32145286
Coord A exon
chr1:32140859-32140912
Coord C2 exon
chr1:32140608-32140640
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTGTCTCTTCTTGGCTACAGGGA
3' ss Score
7.88
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
Exon sequences
Seq C1 exon
GGTCCACCAGGTATTCCCGGACCACCAGGCCCCCCTGGAGTACCTGGGCTGCAG
Seq A exon
GGAGTGCCTGGAAACAACGGTTTGCCAGGACAGCCTGGGCTCACTGCAGAACTG
Seq C2 exon
GGATCCTTACCAATTGAACAGCACCTCCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'53-54,'53-53,55-54=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.914 A=1.000 C2=0.364
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(27.0=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(4.0=18.2)
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:
GGTCCACCAGGTATTCCCGG
R:
AAGGAGGTGCTGTTCAATTGGT
Band lengths:
84-138
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)