HsaEX0016298 @ hg38
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen type XIII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr10:69919062-69921935:+
Coord C1 exon
chr10:69919062-69919088
Coord A exon
chr10:69919665-69919701
Coord C2 exon
chr10:69921882-69921935
Length
37 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTTCTTACCCCAAAGGGA
3' ss Score
8.82
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
Exon sequences
Seq C1 exon
GGTGAGCCAGGGATCCCAGGAACCAAG
Seq A exon
GGAGACCCAGGAGCAGAAGGGAAGCCGGGGCCCCCAG
Seq C2 exon
GGTGAGAAGGGGGCTGAAGGCTCCCCTGGGCTTCCTGGCCTCCTGGGGCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467-'33-38,'33-37,34-38
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(11.9=100)
A:
PF0139113=Collagen=FE(14.8=100)
C2:
PF0139113=Collagen=FE(25.4=100)
Main Inclusion Isoform:
ENST00000398978fB1727
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGCCAGGGATCCCAGG
R:
CTTCTGCCCCAGGAGGCC
Band lengths:
80-117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development