HsaEX0016403 @ hg38
Exon Skipping
Gene
ENSG00000108821 | COL1A1
Description
collagen type I alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2197]
Coordinates
chr17:50194721-50195330:-
Coord C1 exon
chr17:50195232-50195330
Coord A exon
chr17:50195047-50195100
Coord C2 exon
chr17:50194721-50194828
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTCTTCTCCCCCCTTGCAGGGT
3' ss Score
12.9
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTGCTCCTGGTATTGCTGGTGCTCCTGGCTTCCCTGGTGCCCGAGGCCCCTCTGGACCCCAGGGCCCCGGCGGCCCTCCTGGTCCCAAGGGTAACAGC
Seq A exon
GGTGAACCTGGTGCTCCTGGCAGCAAAGGAGACACTGGTGCTAAGGGAGAGCCT
Seq C2 exon
GGCCCTGTTGGTGTTCAAGGACCCCCTGGCCCTGCTGGAGAGGAAGGAAAGCGAGGAGCTCGAGGTGAACCCGGACCCACTGGCCTGCCCGGACCCCCTGGCGAGCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108821-'28-27,'28-26,29-27
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=PD(22.2=42.4),PF0139113=Collagen=PU(42.7=97.0)
A:
PF0139113=Collagen=FE(22.7=100)
C2:
PF0139113=Collagen=PD(30.7=63.9),PF0139113=Collagen=PU(23.4=41.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTATTGCTGGTGCTCCTG
R:
GCTTTCCTTCCTCTCCAGCAG
Band lengths:
144-198
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