HsaEX0016315 @ hg19
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:2190]
Coordinates
chr10:71655306-71662611:+
Coord C1 exon
chr10:71655306-71655332
Coord A exon
chr10:71657231-71657287
Coord C2 exon
chr10:71662504-71662611
Length
57 bp
Sequences
Splice sites
3' ss Seq
TCCATCCCCTCCCAAACTAGGAG
3' ss Score
8.78
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTCAGTGTGGAGAGTACCCACACCGG
Seq A exon
GAGTGCCTAAGCAGCATGCCAGCAGCTCTGCGCTCCAGCCAAATAATTGCCCTGAAG
Seq C2 exon
GGCGAACAGAGCCAGGCCAGCATCCAAGGTCCACCAGGGCCCCCAGGCCCCCCTGGACCAAGTGGACCTCTGGGGCACCCAGGACTGCCAGGGCCTATGGGGCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467_MULTIEX4-1/3=C1-3
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.743 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.2=55.6)
A:
PF0139113=Collagen=PU(1.6=5.3)
C2:
PF0139113=Collagen=FE(53.0=100),PF0139113=Collagen=PU(19.6=30.6)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAGTGTGGAGAGTACCCA
R:
ATAGGCCCTGGCAGTCCTG
Band lengths:
125-182
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)