HsaEX0016311 @ hg19
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:2190]
Coordinates
chr10:71690156-71696538:+
Coord C1 exon
chr10:71690156-71690308
Coord A exon
chr10:71695106-71695147
Coord C2 exon
chr10:71696512-71696538
Length
42 bp
Sequences
Splice sites
3' ss Seq
GGCTCCCCTTTGGCTTTTAGGTT
3' ss Score
9.1
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGACCTCGCGGTAAACCAGGAGACATGGGCCCTCCTGGTCCCCAAGGCCCCCCAGGAAAGGATGGACCTCCAGGAGTGAAGGGAGAAAACGGGCACCCAGGGAGCCCAGGAGAGAAGGGGGAAAAAGGGGAGACAGGACAAGCAGGCTCACCG
Seq A exon
GTTCCTGGGCTGCCAGGGCCAGAGGGGCCTCCCGGACCTCCG
Seq C2 exon
GGGCTCCAAGGTGTTCCTGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467_MULTIEX3-3/6=1-4
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(37.7=45.1),PF0139113=Collagen=PU(71.0=86.3)
A:
PF0139113=Collagen=PD(1.6=7.1),PF0139113=Collagen=PU(21.7=92.9)
C2:
PF0139113=Collagen=FE(10.5=100),PF0139113=Collagen=FE(11.3=100)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCAGGAAAGGATGGACC
R:
CTTTGGTCCAGGAACACCTTGG
Band lengths:
132-174
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)