HsaEX1009352 @ hg38
Exon Skipping
Gene
ENSG00000101203 | COL20A1
Description
collagen type XX alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:14670]
Coordinates
chr20:63326096-63326823:+
Coord C1 exon
chr20:63326096-63326149
Coord A exon
chr20:63326485-63326656
Coord C2 exon
chr20:63326752-63326823
Length
172 bp
Sequences
Splice sites
3' ss Seq
AGGGGAAGCCCAACTTGCAGTCA
3' ss Score
-3.79
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
Exon sequences
Seq C1 exon
GGAATGAGAGGCCTGGAGGGAACTGCTGGCCTGCCTGGACCCCCTGGCCCCAGG
Seq A exon
TCACACTGGAGCAGCTGGCACAGCTGGGGACGTTTAGAGCAGCGTGCTGACAGTGCTGGAGGAGGGGTGCAGGGCATGGGGAGCCAGGGCCTGGAGGCAGGGGAGGCACCACCTGCCGGAGGAATGGCCTGAAGGAGGCTGGGGCCAGCCAGGCATCCACCGCCCTTGTCAG
Seq C2 exon
GGGTTCCAGGGCATGGCAGGGGCCAGGGGCACTAGTGGAGAGCGAGGACCTCCAGGGACCGTGGGGCCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101203-'34-48,'34-47,35-48
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.7=77.8),PF0139113=Collagen=PU(28.8=94.4)
A:
PF0139113=Collagen=PD(3.9=4.5)
C2:
PF0139113=Collagen=FE(33.8=100)
Main Inclusion Isoform:
ENST00000358894fB12740
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGAGAGGCCTGGAGGGAA
R:
CGGTCCCTGGAGGTCCTC
Band lengths:
114-286
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains