HsaEX6085763 @ hg19
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:18603]
Coordinates
chr4:109820310-109839372:-
Coord C1 exon
chr4:109839328-109839372
Coord A exon
chr4:109822275-109822328
Coord C2 exon
chr4:109820310-109820336
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-'19-20,'19-19,20-20=AN
Average complexity
A_S
Mappability confidence:
88%=75=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(17.7=100),PF0139113=Collagen=FE(17.7=100)
C2:
PF0139113=Collagen=PD(4.9=26.7),PF0139113=Collagen=FE(15.6=100)
Main Skipping Isoform:
NA
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:
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
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)