HsaEX6079156 @ hg19
Exon Skipping
Gene
ENSG00000101203 | COL20A1
Description
collagen, type XX, alpha 1 [Source:HGNC Symbol;Acc:14670]
Coordinates
chr20:61956793-61957501:+
Coord C1 exon
chr20:61956793-61956846
Coord A exon
chr20:61957020-61957073
Coord C2 exon
chr20:61957448-61957501
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCCCCTCTGTTCTCTCCCAGGGC
3' ss Score
11.45
5' ss Seq
AAGGTGCCG
5' ss Score
5.74
Exon sequences
Seq C1 exon
GGTCCACCAGGGGTCAAAGGAGAGAAGGGAGACCATGGGCTTCCAGGCTTGCAG
Seq A exon
GGCCACCCCGGCCACCAGGGCATCCCCGGGAGAGTTGGCCTCCAGGGACCAAAG
Seq C2 exon
GGAATGAGAGGCCTGGAGGGAACTGCTGGCCTGCCTGGACCCCCTGGCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101203-'31-37,'31-36,32-37=AN
Average complexity
A_S
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=FE(29.3=100)
A:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(11.8=44.4)
C2:
PF0139113=Collagen=PD(24.1=77.8),PF0139113=Collagen=PU(28.8=94.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCACCAGGGGTCAAAGG
R:
CCAGGCAGGCCAGCAGTT
Band lengths:
92-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)