MmuEX6073551 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114194073-114204877:+
Coord C1 exon
chr3:114194073-114194180
Coord A exon
chr3:114194730-114194783
Coord C2 exon
chr3:114204824-114204877
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTCATTTTCTTTTGTGTAGGGA
3' ss Score
8.92
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
Exon sequences
Seq C1 exon
GGAGAAGCTGGTGCTGAAGGACCTCCTGGGAAAACTGGCCCTGTCGGACCTCAGGGACCTTCTGGAAAGCCTGGTCCAGAAGGTCTTCGAGGCATCCCTGGTCCTGTG
Seq A exon
GGAGAACAAGGTCTCCCAGGTGCTGCTGGCCAAGATGGACCTCCTGGTCCTCTG
Seq C2 exon
GGACCTCCTGGTTTACCTGGTCTCAAAGGTGACCCTGGATCCAAGGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'67-67,'67-66,68-67
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(41.6=88.9)
A:
PF0139113=Collagen=FE(22.1=100),PF0139113=Collagen=PU(4.1=16.7)
C2:
PF0139113=Collagen=FE(22.1=100),PF0139113=Collagen=FE(23.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACCTCCTGGGAAAACTGG
R:
TTTCACCCTTGGATCCAGGGT
Band lengths:
143-197
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