MmuEX6073601 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114066412-114094633:+
Coord C1 exon
chr3:114066412-114066574
Coord A exon
chr3:114090132-114090257
Coord C2 exon
chr3:114094517-114094633
Length
126 bp
Sequences
Splice sites
3' ss Seq
CCTTGCCTGACTCTTTGCAGGGT
3' ss Score
9.74
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
Exon sequences
Seq C1 exon
GTGGCACCGGGTCGCAATCAGTGTGGAGAAGAAAACTGTGACAATGATTGTTGATTGTAAGAAGAAAATCACAAAACCCCTCGATAGAAGTGAGAGATCGATAGTCGATACCAATGGAATCATGGTATTTGGAACAAGAATTTTAGAAACAGATGTTTTCCAG
Seq A exon
GGTGATATTCAGCAGTTCCTGATCACAGGAGACCCCAAGGCAGCATACGACTACTGTGACCATTACAGTCCAGATTGTGACTTAACATCCAAGGCTGCCCAGGCTCAGGAGCCTCACATTGATGAG
Seq C2 exon
TATGCACCTGAGGATATAATCGAGTATGACTATGAATATGGGGAGACAGACTATAAAGAGGCTGAGAGTGTAACAGAGATGCCTACTTTTACTGAAGAAACAGTAGCACAAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'7-7,'7-6,8-7
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.333 C2=0.821
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(43.5=100)
A:
PF0221019=Laminin_G_2=PD(8.1=23.8)
C2:
NO
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:
CACCGGGTCGCAATCAGTG
R:
GGCATCTCTGTTACACTCTCAGC
Band lengths:
242-368
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