MmuEX1007323 @ mm10
Exon Skipping
Gene
ENSMUSG00000043719 | Col6a6
Description
collagen, type VI, alpha 6 [Source:MGI Symbol;Acc:MGI:2444259]
Coordinates
chr9:105698661-105702294:-
Coord C1 exon
chr9:105702198-105702294
Coord A exon
chr9:105700689-105700798
Coord C2 exon
chr9:105698661-105699332
Length
110 bp
Sequences
Splice sites
3' ss Seq
ACCCTTGCTTTGTCTCACAGGCA
3' ss Score
10.58
5' ss Seq
CAGGTGACT
5' ss Score
6.6
Exon sequences
Seq C1 exon
ATTGATGACACTGGCACATTCCAAGTCATTGTGGTTCCCTCCGGGTCTGATGAAGGGCCAGCGTTAGAGAGACTCCAGCGGTGCACTTTCTGCTATG
Seq A exon
GCATATAATGGAAGATATTTTGGCTGTCATTTCCTGCAATTAAAAACCCCACAGAACAGAGCAAATGGGCAGCCTGCTGTCCCTGATTTAAGAAACGGCTCTGCACACAG
Seq C2 exon
ATCTATGCAAGCCGGATGCTTCGTGTGACCAAGCCAAACCACCCCCCATTCAGTCCTACCTGGACACTGCATTCCTACTGGATGGCTCTCGGCACGTGGGAAGTGCAGAGTTTGAAGACATGAGAGACTTTCTAGAGGCACTGCTAGATCACTTCGAAATCACTTCGGAGCCAGAGACATCTGTCACTGGAGACAGGGTGGCCCTGCTGAGCCATGCCCCCCTCGACTTCCTACCCAACACCCAGAGGAGTCCGGTTAGAACTGAGTTCAACCTAACCAGCTATAGCAGTAAGCGCCTCATGAAGAGACACGTGGATCAGGCAGTCCAGCAGCTGCATGGAGATGCTTTTCTTGGCCATGCCCTCGGGTGGGCACTGGACAACGTCTTTTTAAACACCCCCAATTTGAGACGAAACAAAGTCATATTTGTGATATCTGCTGGGGAAACCAGCCACCTGGATGCGGAAACCTTAAAGAAAGAGTCCCTACGAGCCAAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043719-'40-45,'40-44,41-45
Average complexity
S
Mappability confidence:
86%=75=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.013
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(6.6=33.3)
A:
NO
C2:
PF0009223=VWA=WD(100=80.4)
Main Inclusion Isoform:
ENSMUST00000098441fB8080
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCTCCGGGTCTGATGAAG
R:
TGTCTCTGGCTCCGAAGTGAT
Band lengths:
242-352
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