HsaEX6029722 @ hg38
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31655314-31656444:-
Coord C1 exon
chr1:31656400-31656444
Coord A exon
chr1:31656098-31656116
Coord C2 exon
chr1:31655314-31655502
Length
19 bp
Sequences
Splice sites
3' ss Seq
TGCTCCTGCTCACATTCCAGGCC
3' ss Score
7.98
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
Exon sequences
Seq C1 exon
GGACCCCCTGGAAAGCAGGGATTCTATGGACCTCCTGGTCCCAAG
Seq A exon
GCCCTTGTCCTGGCCTCAG
Seq C2 exon
GGTGATCCAGGAGCTGCAGGACAGAAGGGCCAGGCAGGAGAGAAGGGGAGAGCCGGCATGCCTGGTGGACCTGGCAAGAGTGGTTCCATGGGGCCTGTTGGGCCACCGGGCCCTGCAGGAGAGAGAGGCCACCCTGGAGCTCCGGGGCCTTCGGGGAGCCCTGGCTTGCCTGGTGTGCCTGGCTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636_CASSETTE2
Average complexity
S*
Mappability confidence:
100%=100=50%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.0=100)
A:
PF0139113=Collagen=PD(0.1=0.0)
C2:
NO
Main Inclusion Isoform:
ENST00000373672fB31491
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATTCTATGGACCTCCTGG
R:
CATGGAACCACTCTTGCCAGG
Band lengths:
118-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains