HsaEX0016345 @ hg38
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31686244-31688971:-
Coord C1 exon
chr1:31688861-31688971
Coord A exon
chr1:31688467-31688502
Coord C2 exon
chr1:31686244-31686279
Length
36 bp
Sequences
Splice sites
3' ss Seq
CTGTCTTGGTTGTTTTTCAGGGT
3' ss Score
10.77
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGGGAGCCCTGCTTGTCCTGCAGCTCGGTTGTAGGGGCCCAGCATCTTGTGTCCTCCACAGGGGCCAGTGGAGATGTGGGTTCCCCTGGCTTTGGTCTGCCTGGCCTTCCG
Seq A exon
GGTAGAGCTGGGGTTCCAGGGCTGAAAGGAGAGAAG
Seq C2 exon
GGTAACTTCGGGGAGGCAGGGCCAGCTGGCAGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'39-45,'39-40,40-45
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.730 A=0.938 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(25.4=43.2)
A:
PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=FE(17.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTCCTGCAGCTCGGTTGTA
R:
CCCTGCCTCCCCGAAGTTA
Band lengths:
120-156
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