HsaEX6085763 @ hg38
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen type XXV alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:108899154-108918216:-
Coord C1 exon
chr4:108918172-108918216
Coord A exon
chr4:108901119-108901172
Coord C2 exon
chr4:108899154-108899180
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCTATTTTTCTATTTTGAGGGT
3' ss Score
-0.58
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
Exon sequences
Seq C1 exon
GGTTCTATTGGAGCACCTGGAATTCCAGGGATGAATGGGCAAAAG
Seq A exon
GGTGAGCCCGGGTTGCCTGGAGCAGTAGGACAGAATGGAATACCAGGACCTAAG
Seq C2 exon
GGAGAACCTGGAGAACAAGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'34-34,'34-32,36-34
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(14.6=100),PF0139113=Collagen=PU(11.5=73.3)
A:
PF0139113=Collagen=FE(30.4=100),PF0139113=Collagen=PU(20.0=94.4)
C2:
PF0139113=Collagen=FE(14.3=100),PF0139113=Collagen=FE(9.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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:
GGTTCTATTGGAGCACCTGGA
R:
TCACCTTGTTCTCCAGGTTCTC
Band lengths:
68-122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains