HsaEX0016300 @ hg19
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:2190]
Coordinates
chr10:71634884-71640309:+
Coord C1 exon
chr10:71634884-71634919
Coord A exon
chr10:71637795-71637821
Coord C2 exon
chr10:71640259-71640309
Length
27 bp
Sequences
Splice sites
3' ss Seq
GTTGCATGTGGCTGCCCCAGGGA
3' ss Score
4.19
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGGGACAAAGGTGCCATTGGGATGCCTGGACGTGTG
Seq A exon
GGAGTAAAGGGCCAACCAGGCGAGAAG
Seq C2 exon
GGGTCCCCCGGAGACGCTGGGCTGTCCATCATTGGTCCCCGCGGCCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467-'5-9,'5-7,7-9
Average complexity
C1
Mappability confidence:
100%=80=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=FE(23.9=100)
A:
PF0139113=Collagen=FE(15.4=100)
C2:
PF0139113=Collagen=PD(17.4=47.1),PF0139113=Collagen=PU(9.8=35.3)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)