MmuEX6068441 @ mm10
Exon Skipping
Gene
ENSMUSG00000032572 | Col6a4
Description
collagen, type VI, alpha 4 [Source:MGI Symbol;Acc:MGI:1915803]
Coordinates
chr9:106017854-106020664:-
Coord C1 exon
chr9:106020602-106020664
Coord A exon
chr9:106019404-106019466
Coord C2 exon
chr9:106017854-106017889
Length
63 bp
Sequences
Splice sites
3' ss Seq
CTTTGGTTTCTTCATTATAGGGC
3' ss Score
9.41
5' ss Seq
ATGGTAATG
5' ss Score
5.46
Exon sequences
Seq C1 exon
GGAGAAGATGGTAACCCAGGCCGTGGAGGAGAGAAGGGGGCCAAGGGAATCCGAGGGAAGAGG
Seq A exon
GGCAATTCTGGATTTCCTGGGCTTGCTGGAACTCCAGGTGACCAAGGCCCACCGGGAAAAATG
Seq C2 exon
GGCACCAAAGGCTCGAAAGGCTTGGCAGATAGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032572-'43-38,'43-36,44-38=AN
Average complexity
A_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=0.667
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.5=52.4),PF0139113=Collagen=FE(30.8=100)
A:
PF0139113=Collagen=FE(30.8=100)
C2:
PF0139113=Collagen=PD(15.4=83.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGATGGTAACCCAGGCCG
R:
TATCTGCCAAGCCTTTCGAGC
Band lengths:
92-155
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