MmuEX6024021 @ mm10
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45334214-45334814:+
Coord C1 exon
chr1:45334214-45334312
Coord A exon
chr1:45334597-45334650
Coord C2 exon
chr1:45334761-45334814
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCCTTGCTTTTTTCTTTAGGGT
3' ss Score
11.77
5' ss Seq
CCAGTATGT
5' ss Score
5.8
Exon sequences
Seq C1 exon
GGAAGTCAAGGAGAAAGTGGTCGCCCTGGTCCCCCTGGCCCATCTGGTCCCAGAGGTCAGCCTGGTGTCATGGGTTTCCCTGGTCCTAAAGGAAATGAT
Seq A exon
GGTGCCCCTGGCAAGAATGGAGAACGGGGTGGCCCTGGAGGACCTGGCCTTCCA
Seq C2 exon
GGTCCTGCTGGAAAGAATGGGGAGACTGGACCTCAGGGTCCCCCAGGACCTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'29-39,'29-30,33-39=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(53.3=100)
A:
PF0139113=Collagen=PD(8.3=27.8)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCAAGGAGAAAGTGGTCGC
R:
CTGAGGTCCAGTCTCCCCATT
Band lengths:
132-186
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