HsaEX0016464 @ hg38
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen type XXV alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:108869088-108889256:-
Coord C1 exon
chr4:108889221-108889256
Coord A exon
chr4:108884178-108884222
Coord C2 exon
chr4:108869088-108869150
Length
45 bp
Sequences
Splice sites
3' ss Seq
TATATGATTTTCCTGTGTAGGGT
3' ss Score
9.2
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
Exon sequences
Seq C1 exon
GGAGAACCTGGGGAATCTGGTCGTCCAGGGCAAAAG
Seq A exon
GGTGAACCAGGGCTTCCTGGGCTTCCTGGACTTCCGGGGATAAAG
Seq C2 exon
GGAGAACCAGGTTTCATTGGTCCTCAAGGAGAACCAGGCTTACCAGGTTTACCAGGAACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517_MULTIEX3-3/3=2-C2
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(11.5=100),PF0139113=Collagen=FE(17.2=100)
A:
PF0139113=Collagen=FE(14.6=100),PF0139113=Collagen=FE(21.9=100)
C2:
PF0139113=Collagen=PD(3.1=14.3),PF0139113=Collagen=FE(31.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACCTGGGGAATCTGGT
R:
CCTGGTAAACCTGGTAAGCCTG
Band lengths:
92-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development