MmuEX6073562 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114166977-114173403:+
Coord C1 exon
chr3:114166977-114167030
Coord A exon
chr3:114167482-114167589
Coord C2 exon
chr3:114173350-114173403
Length
108 bp
Sequences
Splice sites
3' ss Seq
AGTATCTTGCTATTCTCTAGGGA
3' ss Score
6.75
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
GGTCCTCCTGGTCCCCCCGGACTTCAAGGACCTGTTGGTGCTCCTGGAATCGCT
Seq A exon
GGAGGCGATGGTGAGCCAGGTCCCCGAGGACAGCAGGGAATGTTTGGACAAAAAGGTGATGAGGGCGCACGAGGTTTCCCAGGACTTCCTGGCCCCATAGGTCTTCAG
Seq C2 exon
GGGTTGCCAGGCCCACCAGGTGAAAAGGGCGAAAATGGAGACGTTGGCCCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'50-59,'50-55,57-59=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=FE(19.5=100)
A:
PF0139113=Collagen=PD(59.6=94.4),PF0139113=Collagen=PU(14.5=25.0)
C2:
PF0139113=Collagen=FE(19.5=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:
CGGACTTCAAGGACCTGTTGG
R:
ATGGGGCCAACGTCTCCATTT
Band lengths:
90-198
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