MmuEX6088979 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94941728-94942248:+
Coord C1 exon
chr11:94941728-94941781
Coord A exon
chr11:94942016-94942114
Coord C2 exon
chr11:94942204-94942248
Length
99 bp
Sequences
Splice sites
3' ss Seq
TGTCCTTTCCTCCGATCTAGGGT
3' ss Score
11.7
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGTCCCACCGGCCCCACTGGCCCTCCTGGCTTCCCTGGTGCAGTTGGTGCTAAG
Seq A exon
GGTGAAGCTGGTCCCCAAGGAGCTAGAGGCTCTGAAGGTCCCCAGGGTGTGCGTGGTGAGCCCGGACCCCCTGGCCCTGCTGGTGCTGCCGGCCCTGCT
Seq C2 exon
GGAAACCCTGGTGCTGATGGACAACCTGGCGCTAAAGGTGCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'20-19,'20-18,22-19
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(28.3=100),PF0139113=Collagen=FE(19.5=100)
A:
PF0139113=Collagen=PD(3.3=6.1),PF0139113=Collagen=FE(36.8=100)
C2:
PF0139113=Collagen=FE(16.1=100)
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:
GCTTCCCTGGTGCAGTTGG
R:
ATTGGCACCTTTAGCGCCAG
Band lengths:
71-170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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