HsaEX0016462 @ hg19
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:18603]
Coordinates
chr4:109971291-110221808:-
Coord C1 exon
chr4:110221739-110221808
Coord A exon
chr4:110132709-110132745
Coord C2 exon
chr4:109971291-109971335
Length
37 bp
Sequences
Splice sites
3' ss Seq
TTTTTCTGAATATCTTCCAGGTT
3' ss Score
10.14
5' ss Seq
CAGGTAATT
5' ss Score
8.55
Exon sequences
Seq C1 exon
AAATCCTATGAACATATGGCTAAAATAAGAATCGCAAGAGAAGCACCTTCAGAATGTAACTGCCCAGCAG
Seq A exon
GTTCATAGAATGGGATGCCCACTGATGACAATGCCAG
Seq C2 exon
GCCCTCCAGGGAAACGAGGTAAGAGAGGCCGAAGAGGAGAATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'5-6,'5-4,6-6
Average complexity
S
Mappability confidence:
89%=100=80%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.548 A=0.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(10.4=20.8)
A:
NO
C2:
PF0139113=Collagen=FE(26.8=100)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
ACATATGGCTAAAATAAGAATCGCA
R:
CAGATTCTCCTCTTCGGCCTC
Band lengths:
104-141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)