HsaEX6029706 @ hg38
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31672416-31672840:-
Coord C1 exon
chr1:31672724-31672840
Coord A exon
chr1:31672596-31672637
Coord C2 exon
chr1:31672416-31672502
Length
42 bp
Sequences
Splice sites
3' ss Seq
CCTCTCATTGTCCCTTGCAGTGC
3' ss Score
9.79
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
AGTATCTGCGGGGACTGTGTCCAGGGGCAGAGGGCCCACCCAGGGTACCTCGTGGAGAAGGGAGAGAAGGGAGACCAGGGCATCCCTGGTGTGCCAGGCCTCGACAACTGCGCCCAG
Seq A exon
TGCTTTTTGTCACTGGAGCGCCCAAGAGCCGAGGAGGCCCGG
Seq C2 exon
GGTGACAACAGTGAGGGAGATCCTGGCTGTGTTGGGAGCCCAGGCCTACCTGGTCCTCCGGGATTGCCAGGCCAGAGAGGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'73-76,'73-75,74-76
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=0.875 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0139113=Collagen=PU(39.7=93.1)
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:
AGTATCTGCGGGGACTGTGTC
R:
GCCAGGATCTCCCTCACTGTT
Band lengths:
144-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains