MmuEX6024015 @ mm10
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45337241-45338627:+
Coord C1 exon
chr1:45337241-45337339
Coord A exon
chr1:45337958-45338011
Coord C2 exon
chr1:45338574-45338627
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGCTTGCTTTTGATTCGCAGGGT
3' ss Score
8.07
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
GGTGATTCTGGTGCACCTGGAGAACGTGGGCCTCCTGGAACAGCAGGAATCCCTGGTGCTAGAGGTGGAGCTGGACCCCCTGGCCCTGAGGGAGGAAAG
Seq A exon
GGTGAACCAGGTGGTGCAGGTGCTGACGGAGTTCCAGGAAAGGATGGGCCAAGG
Seq C2 exon
GGTCCTGCTGGCCCTATTGGTCCCCCTGGCCCAGCTGGTCAGCCTGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'41-43,'41-39,42-43=AN
Average complexity
A_C3
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(55.0=100),PF0139113=Collagen=PU(24.3=50.0)
A:
PF0139113=Collagen=PD(10.0=31.6),PF0139113=Collagen=FE(25.7=100)
C2:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(3.0=11.1)
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:
GTGATTCTGGTGCACCTGGAG
R:
CTGACCAGCTGGGCCAGG
Band lengths:
140-194
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