MmuEX6088971 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94947074-94947487:+
Coord C1 exon
chr11:94947074-94947181
Coord A exon
chr11:94947270-94947323
Coord C2 exon
chr11:94947434-94947487
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCTTGACACTGTCTTACAGGGT
3' ss Score
8.73
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGTGCTGATGGCCAACCTGGTGCGAAAGGTGAACCTGGTGATACTGGTGTTAAAGGTGATGCTGGTCCTCCTGGCCCTGCTGGTCCTGCTGGACCCCCCGGCCCCATT
Seq A exon
GGTAACGTTGGTGCTCCTGGACCCAAAGGTCCTCGTGGTGCTGCTGGTCCCCCT
Seq C2 exon
GGTGCTACTGGCTTCCCTGGTGCTGCTGGCCGTGTCGGTCCCCCTGGTCCCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'49-51,'49-44,52-51=AN
Average complexity
A_S
Mappability confidence:
NA
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(33.3=55.6),PF0139113=Collagen=PU(23.3=38.9)
A:
PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=FE(28.3=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:
GGTGCTGATGGCCAACCTG
R:
AGCACCAGGGAAGCCAGTAG
Band lengths:
132-186
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