HsaEX1009372 @ hg38
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen type XXV alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:108941366-108974559:-
Coord C1 exon
chr4:108974533-108974559
Coord A exon
chr4:108974367-108974393
Coord C2 exon
chr4:108941366-108941437
Length
27 bp
Sequences
Splice sites
3' ss Seq
CTCACCTTTCTATTCTACAGGGA
3' ss Score
9.92
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
Exon sequences
Seq C1 exon
GGCCCTCCTGGTCCAAAAGGCGATAAG
Seq A exon
GGAGAACAAGGTGATCAGGGACCTAGG
Seq C2 exon
ATGGTGTTTCCTAAAATCAATCATGGGTTTCTCTCTGCTGATCAGCAGCTCATTAAACGCCGCCTGATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'22-24,'22-16,23-24
Average complexity
C1
Mappability confidence:
87%=50=91%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.994
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(16.7=100)
A:
PF0139113=Collagen=FE(16.7=100)
C2:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=PU(1.8=4.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GGCCCTCCTGGTCCAAAAG
R:
AATCAGGCGGCGTTTAATGAG
Band lengths:
96-123
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains