MmuEX6026245 @ mm10
Exon Skipping
Gene
ENSMUSG00000048126 | Col6a3
Description
collagen, type VI, alpha 3 [Source:MGI Symbol;Acc:MGI:88461]
Coordinates
chr1:90810126-90813814:-
Coord C1 exon
chr1:90813215-90813814
Coord A exon
chr1:90811259-90811831
Coord C2 exon
chr1:90810126-90810728
Length
573 bp
Sequences
Splice sites
3' ss Seq
TCCATCTGTTTTCCTCGTAGAGA
3' ss Score
9.72
5' ss Seq
CAGGTATGG
5' ss Score
9.99
Exon sequences
Seq C1 exon
TAACAGCCTCGATGTTGGAAGTGACAATATCCGTGTTGGCTTGGTGCAGTTTAGTGACACTCCGGTCACGGAGTTCTCTCTAGACACTTACCAGACCAAGTCCGAGCTGCTCGCTCACCTGAGGCGCTTGCAGCTCAAGGGGGGCTCCGGCTTGAACGCAGGCTCTGCCTTGAGCTATATCCATGCCAATCACTTCACGGAGGCAGGAGGCAGCAGGACTCGTGAACACGTGCCTCAGCTGCTGCTCCTGCTCATGGCCGGGCCCTCTGAGGATGCCTATTTGCAAGCTGCCAATGCCCTGGTGCGCTCAGGCGTGCTGACCTTCTGTGTGGGGACCAATCGGGCGGATAAGGCTGAGTTAGAGCATATTGCTTTTAATCCCAGCCTGGTATACCTCATGGACGATTTCCGCTCCCTGCCATCTTTGCCTCAACAGCTGATTCAGCCCCTAACCACATATGTTAGTGGAGGTGTACAGGAAGTTCCACTATCCCAGCCAG
Seq A exon
AGAGCAAGCGGGACATTCTTTTCCTCTTTGACGGCTCAGTCAATGTCTTGGGTCAGTTCCCTGCTGTCAGAGACTTTCTCTACAGGATCATTGAGGAACTTGATGTGAAGCCGGATGGGACCCGGGTAGCAATAGCTCAGTTCAGTGATGACGTCAGGCTGGAGTCCCGCTTCAGTGAGCACCAGACGAAAGCTGAAATCCTTAATCTCGTGAAGAAGATGAAGCTAAAAACAGGCAAAGCCCTCAACCTGGGCTACGCCCTGGACTACGCGCTTAGGAACATCTTTGTGAGGTCGGCTGGCAGCCGCATCGAGGATAACGTGCAGCAGTTCCTGGTGCTGCTGGTTGCTGGAAGGTCGTCAGATGCTGTGGCCGGGCCTGCAAGCTCCCTGAAGCAGAGAGGAGTGGTACCTTTCATCTTTCAAGCCAAGAACGCCAACCCCAGTGAGCTGGAGCAGATTGTGCTGTCGCCTGCATTCATCCTGGCTGCAGAGTCACTCCCTAAGATCGGAGACCTCCAATCACAGATTGTGAGCCTTCTGAAAGCAGAACAGGGTTCAGGCCCTGTATCAG
Seq C2 exon
GTGAAAAGGATGTGGTGTTTCTCATTGATGGCTCTGAGGGTGTCCGCAGTGGCTTCCCCCTGCTAAAGGACTTTGTGCAGAGGGTTGTGGAGAGCTTGGATGTGGGTCCCGACCGTGTGCGTGTGGCACTGGTGCAGTACAGTGACCGGACCAGGCCGGAGTTCTACCTGAATTCCCACATGGACCAGCAGGGTGTCATCAGCGCCATCCGCAGGCTGACACTGCTGGGCGGCCCAACCCCCAACACAGGGGCGGCACTGGAGTTCGTGTTAAGGAACATTCTGACCAGTTCTACTGGGAGCAGGATAGCAGAAGGTGTTCCTCAGCTCCTGATTGTCCTCACAGCAGAGCCATCAGGGGATGACGTGCGAGGCCCTTCAGTAGTCCTGAAGCAGGGCGGGGCTGTGCCCATTGGCATTGGCATTGGGAATGCTGACATCTCTGAAATGCAGACCATCTCCTTCATCCCTGACTTTGCTGTGGCCATCCCCACCTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048126-'10-7,'10-6,11-7
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=0.000 C2=0.010
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=88.6)
A:
PF0009223=VWA=WD(100=90.1)
C2:
PF0009223=VWA=WD(100=86.6)
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:
GGCCCTCTGAGGATGCCTATT
R:
CATCCAAGCTCTCCACAACCC
Band lengths:
342-915
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