HsaEX6023492 @ hg38
Exon Skipping
Gene
ENSG00000108821 | COL1A1
Description
collagen type I alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2197]
Coordinates
chr17:50195232-50195665:-
Coord C1 exon
chr17:50195567-50195665
Coord A exon
chr17:50195434-50195478
Coord C2 exon
chr17:50195232-50195330
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTCCTTTCTCTGTGCCACAGGGA
3' ss Score
9.83
5' ss Seq
AATGTAAGT
5' ss Score
8.62
Exon sequences
Seq C1 exon
GGTGAAGCTGGTCCCCAAGGGCCCCGAGGCTCTGAAGGTCCCCAGGGTGTGCGTGGTGAGCCTGGCCCCCCTGGCCCTGCTGGTGCTGCTGGCCCTGCT
Seq A exon
GGAAACCCTGGTGCTGATGGACAGCCTGGTGCTAAAGGTGCCAAT
Seq C2 exon
GGTGCTCCTGGTATTGCTGGTGCTCCTGGCTTCCCTGGTGCCCGAGGCCCCTCTGGACCCCAGGGCCCCGGCGGCCCTCCTGGTCCCAAGGGTAACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108821-'26-25,'26-24,27-25
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(3.3=6.1),PF0139113=Collagen=PU(50.8=97.0)
A:
PF0139113=Collagen=FE(22.2=100)
C2:
PF0139113=Collagen=PD(22.2=42.4),PF0139113=Collagen=PU(42.7=97.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGCGTGGTGAGCCTG
R:
TTACCCTTGGGACCAGGAGG
Band lengths:
148-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains