MmuEX6024014 @ mm10
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45338574-45339412:+
Coord C1 exon
chr1:45338574-45338627
Coord A exon
chr1:45338710-45338763
Coord C2 exon
chr1:45339359-45339412
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCATTTGATCTTTTCTCAGGGT
3' ss Score
7.99
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCCTGCTGGCCCTATTGGTCCCCCTGGCCCAGCTGGTCAGCCTGGAGATAAG
Seq A exon
GGTGAAGGTGGTTCCCCTGGACTTCCAGGTATAGCTGGACCTCGAGGTGGCCCT
Seq C2 exon
GGTGAGAGAGGTGAACATGGCCCTCCAGGACCTGCTGGCTTCCCGGGTGCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'43-43,'43-41,44-43
Average complexity
S
Mappability confidence:
100%=100=100%
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(21.8=100),PF0139113=Collagen=PU(3.0=11.1)
A:
PF0139113=Collagen=PD(22.9=84.2),PF0139113=Collagen=FE(30.0=100)
C2:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=FE(25.8=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:
TCCTGCTGGCCCTATTGGTC
R:
GAGCACCCGGGAAGCCAG
Band lengths:
104-158
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