HsaEX0016298 @ hg19
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:2190]
Coordinates
chr10:71678818-71681691:+
Coord C1 exon
chr10:71678818-71678844
Coord A exon
chr10:71679421-71679483
Coord C2 exon
chr10:71681638-71681691
Length
63 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTTCTTACCCCAAAGGGA
3' ss Score
8.82
5' ss Seq
AGGGTAGGA
5' ss Score
6.45
Exon sequences
Seq C1 exon
GGTGAGCCAGGGATCCCAGGAACCAAG
Seq A exon
GGAGACCCAGGAGCAGAAGGGAAGCCGGGGCCCCCAGGTTTGCTGGGAAAGAGGGGGCAGAGG
Seq C2 exon
GGTGAGAAGGGGGCTGAAGGCTCCCCTGGGCTTCCTGGCCTCCTGGGGCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467-'24-26,'24-25,26-26
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(4.8=33.3),PF0139113=Collagen=FE(12.9=100)
A:
PF0139113=Collagen=FE(32.3=100)
C2:
PF0139113=Collagen=FE(25.8=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCAGGGATCCCAGGAAC
R:
CTTCTGCCCCAGGAGGCC
Band lengths:
78-141
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)