MmuEX6024017 @ mm10
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45335728-45337339:+
Coord C1 exon
chr1:45335728-45335781
Coord A exon
chr1:45336660-45336704
Coord C2 exon
chr1:45337241-45337339
Length
45 bp
Sequences
Splice sites
3' ss Seq
ACATAATGTTGACCTCCTAGGGT
3' ss Score
6.27
5' ss Seq
AAGGTAATT
5' ss Score
8.83
Exon sequences
Seq C1 exon
GGCATACCTGGTACCGGTGGTCCTCCAGGAGAAAATGGGAAACCAGGTGAACCA
Seq A exon
GGTCCAAAGGGTGAAGTCGGTGCTCCTGGAGCTCCTGGAGGCAAG
Seq C2 exon
GGTGATTCTGGTGCACCTGGAGAACGTGGGCCTCCTGGAACAGCAGGAATCCCTGGTGCTAGAGGTGGAGCTGGACCCCCTGGCCCTGAGGGAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'28-43,'28-36,38-43=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:
NO
A:
PF0139113=Collagen=FE(25.0=100)
C2:
PF0139113=Collagen=FE(55.0=100),PF0139113=Collagen=PU(24.3=50.0)
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:
CGGTGGTCCTCCAGGAGAAAA
R:
CTTTCCTCCCTCAGGGCCAG
Band lengths:
139-184
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