Special

MmuEX6073579 @ mm10

Exon Skipping

Gene
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114124308-114131666:+
Coord C1 exon
chr3:114124308-114124352
Coord A exon
chr3:114129374-114129427
Coord C2 exon
chr3:114131559-114131666
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTCATGTTATTTTTTAGGGT
3' ss Score
11.36
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
Exon sequences
Seq C1 exon
GGAGCAGATGGTGTCAGAGGTCTCAAGGGCTCTAAAGGCGAAAAG
Seq A exon
GGTGAAGATGGCTTTCCAGGATTCAAAGGTGACATGGGTCTTAAAGGTGACAGA
Seq C2 exon
GGCGAGGTGGGTCAAGTTGGCCCAAGAGGAGAAGATGGCCCTGAAGGCCCCAAAGGCCGTGCAGGCCCAACTGGAGACCCAGGTCCCTCTGGCCAAGCAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'26-34,'26-32,37-34=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(16.5=100)
A:
PF0139113=Collagen=FE(20.0=100)
C2:
PF0139113=Collagen=PD(9.4=22.2)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGTCAGAGGTCTCAAGGG
R:
TTCTCTCCTGCTTGGCCAGAG
Band lengths:
144-198
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