MmuEX6088966 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94948543-94949234:+
Coord C1 exon
chr11:94948543-94948596
Coord A exon
chr11:94948706-94948813
Coord C2 exon
chr11:94949181-94949234
Length
108 bp
Sequences
Splice sites
3' ss Seq
CCTCTACCCTCTGTTCCCAGGGT
3' ss Score
10.01
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGATCCCCTGGTGCTGAAGGCTCCCCTGGAAGGGATGGTGCTCCCGGGGCCAAG
Seq A exon
GGTGACCGTGGTGAGACTGGCCCCGCTGGCCCCCCTGGTGCCCCTGGTGCTCCCGGTGCTCCCGGCCCTGTTGGTCCCGCTGGCAAGAATGGCGATCGTGGTGAGACT
Seq C2 exon
GGTCCTGCTGGTCCTGCTGGTCCCATTGGCCCTGCTGGTGCCCGTGGCCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'61-52,'61-51,62-52
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=PU(20.0=77.8)
A:
PF0139113=Collagen=FE(50.0=100)
C2:
PF0139113=Collagen=FE(24.3=100),PF0139113=Collagen=PU(13.3=44.4)
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:
GGATCCCCTGGTGCTGAAGG
R:
CACCAGCAGGGCCAATGG
Band lengths:
94-202
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