MmuEX6073578 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114129374-114133189:+
Coord C1 exon
chr3:114129374-114129427
Coord A exon
chr3:114131559-114131666
Coord C2 exon
chr3:114133136-114133189
Length
108 bp
Sequences
Splice sites
3' ss Seq
AATGTTACTGTGCATTTTAGGGC
3' ss Score
8.75
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGTGAAGATGGCTTTCCAGGATTCAAAGGTGACATGGGTCTTAAAGGTGACAGA
Seq A exon
GGCGAGGTGGGTCAAGTTGGCCCAAGAGGAGAAGATGGCCCTGAAGGCCCCAAAGGCCGTGCAGGCCCAACTGGAGACCCAGGTCCCTCTGGCCAAGCAGGAGAGAAG
Seq C2 exon
GGAAAACTTGGGGTTCCAGGATTGCCGGGATATCCAGGAAGACAAGGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'33-44,'33-34,38-44=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=0.944
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.0=100)
A:
PF0139113=Collagen=PD(9.4=22.2)
C2:
PF0139113=Collagen=FE(24.3=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:
TGGCTTTCCAGGATTCAAAGGT
R:
CTTTGGACCTTGTCTTCCTGGA
Band lengths:
100-208
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