Special

MmuEX6073586 @ mm10

Exon Skipping

Gene
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114114934-114115784:+
Coord C1 exon
chr3:114114934-114114987
Coord A exon
chr3:114115486-114115530
Coord C2 exon
chr3:114115731-114115784
Length
45 bp
Sequences
Splice sites
3' ss Seq
CATTTTGCTCTTCATTGAAGGGT
3' ss Score
7.01
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
GGTCCAAGAGGCTTGCTGGGACCAAGGGGAACTCCAGGACCCCCTGGGCAGCCT
Seq A exon
GGTATCGGAGGTATAGATGGCCCCCAAGGACCAAAAGGAAACATG
Seq C2 exon
GGTCCCCAAGGGGAGCCTGGACCACCAGGTCAGCAAGGAAATCCAGGACCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'26-34,'26-25,30-34=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(20.0=100)
A:
PF0139113=Collagen=FE(16.5=100),PF0139113=Collagen=PU(16.1=93.3)
C2:
PF0139113=Collagen=FE(20.0=100),PF0139113=Collagen=FE(19.5=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCAAGAGGCTTGCTGG
R:
TTGAGGTCCTGGATTTCCTTGC
Band lengths:
108-153
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