HsaEX0016337 @ hg38
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31696088-31697300:-
Coord C1 exon
chr1:31697220-31697300
Coord A exon
chr1:31696963-31697088
Coord C2 exon
chr1:31696088-31696141
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-'13-12,'13-10,15-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.420 C2=0.940
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0139113=Collagen=PU(12.5=38.9)
Main Skipping Isoform:
NA
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