MmuEX0012343 @ mm9
Exon Skipping
Gene
ENSMUSG00000043719 | Col6a6
Description
collagen, type VI, alpha 6 [Source:MGI Symbol;Acc:MGI:2444259]
Coordinates
chr9:105682944-105686580:-
Coord C1 exon
chr9:105685960-105686580
Coord A exon
chr9:105684235-105684795
Coord C2 exon
chr9:105682944-105683501
Length
561 bp
Sequences
Splice sites
3' ss Seq
ACTTTTTGGTTCCATTTCAGCCT
3' ss Score
7.76
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
AAAGGAAAATTGCATGAGGGTTGGCCTGGTGACCTATAGCAATGAGACAAGGGTGATCAGCTCTCTGAGCACGGGTAACAACAAGACAGAAGTCTTGCAGCGCATACAGGATCTGTCCCCTCAAGTAGGGCAGGCCTACACTGGAGCTGCCCTCAGAAAGACTAGGAAGGAAATCTTCAGTGCACAGAGGGGCAGTCGGAAGAACCAAGGGGTCCCTCAGATCGCTGTGCTGGTGACCCACAGAGCATCAGAAGACAACGTGACCAAGGCAGCTGTCAACCTCCGGCGGGAGGGAGTGACCATCTTTACCATGGGCATAGAGGGGGCTAACCCAGACGAGCTGGAGAAGATCGCATCCCACCCTGCGGAGCAGTTCACCTCCAAACTGGGCAACTTCTCTGAGCTGGCCACCCACAACCAGACGTTCCTGAAGAAACTGCGGAACCAAATCACACACACGGTCTCTGTCTTCTCAGAACGGACTGAGACCCTCAAATCTG
Seq A exon
CCTGTGTGGACACAGAGGAAGCCGATATCTATCTACTCATTGATGGTTCAGGGAGCACCCAGCCCACAGACTTCCATGAAATGAAGACCTTCCTGTCAGAGGTGGTAGGCATGTTCAACATTGCTCCCCACAAGGTGCGAGTAGGGGCCGTGCAGTACGCCGACACCTGGGACTTGGAATTTGAGATCTCTAAGTATAGTAACAAGCCTGACTTGGGAAAGGCCATCGAGAATATCAGGCAGATGGGTGGGAATACCAACACAGGGGCGGCTTTGAACTTCACACTGAAGCTGTTGCAAAGAGCAAAGAAGGAACGAGGAAGCAAAGTGCCGTGTCACCTGGTGGTTCTGACCAATGGCATGTCTCGGGACAGCGTCCTGGGGCCTGCCCATAAGCTGAGAGAGGAAAACATCAGAGTGCATGCGATCGGTGTCAAGGAAGCCAACCAAACGCAGCTTCGGGAGATAGCGGGAGAGGAAAAGCGAGTTTACTACGTCCATGAGTTCGATGCCTTGAGGAACATAAGGAACCAAGTGGTTCAGGAGATCTGTGCTGAAGAAG
Seq C2 exon
CCTGCAGAGACATGAAAGCGGACATCATGTTTCTGGTGGACAGCTCTGGCAGCATCGGACCTGAAAACTTCAGCAAGATGAAGATGTTTATGAAGAACCTGGTGAGCAAATCCCAGATCGGGGCTGACCGGGTGCAAATTGGCGTGGTCCAGTTCAGCCACGAAAACAAGGAGGAGTTTCAGCTCAACACGTTCATGTCTCAAAGTGACATCGCCAACGCCATTGACCGAATGACTCACATTGGAGAAACAACCTTGACGGGCAGTGCCCTGACCTTTGTGTCTCAGTACTTCAGTCCCGATAAGGGGGCCAGGCCCAATGTCAGGAAGTTCCTCATTCTTATCACGGATGGTGAGGCTCAGGACATAGTAAGGGACCCAGCGATCGCCCTTCGAAAAGAAGGTGTGATTATCTATTCTGTGGGAGTATTCGGCTCCAATGTCACCCAGCTTGAGGAGATCAGTGGAAAGCCAGAGATGGTTTTCTATGTTGAGAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043719-'4-5,'4-4,5-5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=0.027 C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=86.1)
A:
PF0009223=VWA=WD(100=91.0)
C2:
PF0009223=VWA=WD(100=90.9)
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:
CTGGGCAACTTCTCTGAGCTG
R:
TGAGTCATTCGGTCAATGGCG
Band lengths:
353-914
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: