MmuEX0012186 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94944752-94945412:+
Coord C1 exon
chr11:94944752-94944805
Coord A exon
chr11:94944914-94944967
Coord C2 exon
chr11:94945368-94945412
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTCCACCTCCCACCTTACAGGGT
3' ss Score
8.39
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GGTCCTGCTGGTGAGAGAGGTGAACAAGGTCCCGCTGGCTCCCCTGGATTCCAG
Seq A exon
GGTCTTCCTGGTCCTGCCGGTCCTCCTGGTGAAGCAGGCAAGCCTGGTGAACAG
Seq C2 exon
GGTGTTCCTGGAGACCTTGGTGCCCCTGGACCCTCTGGCGCAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'39-36,'39-34,40-36
Average complexity
C1
Mappability confidence:
89%=100=80%
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(18.3=100)
A:
PF0139113=Collagen=PD(11.8=61.1)
C2:
NO
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:
TGCTGGTGAGAGAGGTGAACA
R:
TCTTGCGCCAGAGGGTCC
Band lengths:
94-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types