HsaEX0016465 @ hg38
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen type XXV alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:108889701-108899180:-
Coord C1 exon
chr4:108899154-108899180
Coord A exon
chr4:108896667-108896711
Coord C2 exon
chr4:108889701-108889733
Length
45 bp
Sequences
Splice sites
3' ss Seq
TCACTTTCTCACCTCCTCAGGGA
3' ss Score
10.48
5' ss Seq
AAGGTACAG
5' ss Score
8.04
Exon sequences
Seq C1 exon
GGAGAACCTGGAGAACAAGGTGAAAAG
Seq A exon
GGAGACGCTGGAGAGAACGGCCCCAAGGGTGACACAGGCGAAAAG
Seq C2 exon
GGTGACCCTGGATCATCTGCTGCAGGAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'38-36,'38-35,39-36
Average complexity
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(14.3=100),PF0139113=Collagen=FE(9.4=100)
A:
PF0139113=Collagen=PD(5.4=20.0),PF0139113=Collagen=FE(16.5=100)
C2:
PF0139113=Collagen=FE(10.4=100),PF0139113=Collagen=PU(6.2=36.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACCTGGAGAACAAGGTG
R:
CTTAATTCCTGCAGCAGATGATCCA
Band lengths:
60-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development