MmuEX0012336 @ mm10
Exon Skipping
Gene
ENSMUSG00000048126 | Col6a3
Description
collagen, type VI, alpha 3 [Source:MGI Symbol;Acc:MGI:88461]
Coordinates
chr1:90811259-90830258:-
Coord C1 exon
chr1:90830143-90830258
Coord A exon
chr1:90815951-90816535
Coord C2 exon
chr1:90811259-90811831
Length
585 bp
Sequences
Splice sites
3' ss Seq
TTTATTATTGCTATCTACAGTCA
3' ss Score
5.72
5' ss Seq
AAGGTATGG
5' ss Score
9.26
Exon sequences
Seq C1 exon
GTTCACACTTGGTGCTTAGACATTCAAAATGAGGAAACACCGGCATCTGCCCCTAGTGGCTGTCTTTAGCCTTCTCCTCTCAGGCATTGCCACGACTCATGCCCAACAGCATGGAG
Seq A exon
TCATGGAAGTCAACAAGAGGGACATAGTCTTCCTGGTGGATGGTTCCTCCAGCCTGGGGCCATCCAACTTCAATGCCATCCGAGACTTCGTTACCAGAGTCATCCAGAGGTTGGAAATTGGACAGGACCTGGTTCAGGTATCAGTGGCTCAGTATGCAGACACTGTCAAGCCTGAGTTCTATTTAAATTCCTATACCAACAAAAGGGATGCCATAACTGCTGTACGGAAGATGAGGGCCCTGAATGGCTCAGCCCTGTACACGGGATCTTCTCTGGACTTTGTTCGAAACAACCTCTTCACTAGCTCAGCCGGCCATAGGGCCGCTGAGGGGGTTCCTAAGCTCCTGGTGCTGATCACAGGCGGTAAGTCCCTCGATGAAGTCAGCCAGCCTGCCCAGGAGCTGAAGAGAGGCAGCATCATGGCCTTGGCCGTTGGCAGCAAGGCCGCCGATGAGGATGAGCTGAAAGAGATCGCTTTCGACTCCTCCCTGGTCTTCATTCCCGCTGAGTTCCGCCCTGCTCCCTTGCAAAACATGCTGCCCAGCCTGATGGCACCTCTCAGGACTCTCACTGGAACCACGGAAG
Seq C2 exon
AGAGCAAGCGGGACATTCTTTTCCTCTTTGACGGCTCAGTCAATGTCTTGGGTCAGTTCCCTGCTGTCAGAGACTTTCTCTACAGGATCATTGAGGAACTTGATGTGAAGCCGGATGGGACCCGGGTAGCAATAGCTCAGTTCAGTGATGACGTCAGGCTGGAGTCCCGCTTCAGTGAGCACCAGACGAAAGCTGAAATCCTTAATCTCGTGAAGAAGATGAAGCTAAAAACAGGCAAAGCCCTCAACCTGGGCTACGCCCTGGACTACGCGCTTAGGAACATCTTTGTGAGGTCGGCTGGCAGCCGCATCGAGGATAACGTGCAGCAGTTCCTGGTGCTGCTGGTTGCTGGAAGGTCGTCAGATGCTGTGGCCGGGCCTGCAAGCTCCCTGAAGCAGAGAGGAGTGGTACCTTTCATCTTTCAAGCCAAGAACGCCAACCCCAGTGAGCTGGAGCAGATTGTGCTGTCGCCTGCATTCATCCTGGCTGCAGAGTCACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048126_MULTIEX1-3/4=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0009223=VWA=WD(100=87.8)
C2:
PF0009223=VWA=WD(100=90.1)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCCTAGTGGCTGTCTTTA
R:
GTTCCTAAGCGCGTAGTCCAG
Band lengths:
350-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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