MmuEX0010249 @ mm9
Exon Skipping
Gene
ENSMUSG00000024670 | Cd6
Description
CD6 antigen [Source:MGI Symbol;Acc:MGI:103566]
Coordinates
chr19:10870816-10873117:-
Coord C1 exon
chr19:10872806-10873117
Coord A exon
chr19:10872166-10872468
Coord C2 exon
chr19:10870816-10870878
Length
303 bp
Sequences
Splice sites
3' ss Seq
ACTTCATCACCTGCCCACAGAGC
3' ss Score
8.36
5' ss Seq
CAGGTATTC
5' ss Score
6.49
Exon sequences
Seq C1 exon
AGAACCAAGCAGTGCGGTTAGTGGATGGTAGCAGCCGCTGTGCTGGCCGAGTGGAGATGCTGGAGCATGGTGAATGGGGTACCGTGTGCGACGACACGTGGGACCTGCAGGATGCACACGTAGTGTGTAAGCAACTGAAGTGCGGCTGGGCAGTGAAGGCGCTGGCCGGCTTGCACTTCACCCCAGGCCAAGGACCCATCCACCGCGATCAGGTGAACTGCTCTGGGACTGAGGCTTACCTGTGGGACTGCCCGGGACGGCCAGGAGACCAGTACTGTGGTCACAAGGAGGACGCAGGAGTGGTGTGCTCAG
Seq A exon
AGCACCAGTCCTGGCGCCTGACTGGAGGCATTGACTCCTGCGAAGGGCAAGTGGAAGTGTACTTCCGGGGTGTCTGGAGCACGGTGTGTGACAGCGAGTGGTACCCATCTGAGGCCAAAGTGCTCTGTCGGTCCTTGGGTTGCGGATCAGCAGTGGCTCGGCCCAGGGGGCTGCCACACTCCCTGGACGGTAGAATGTACTACTCCTGCAAAGGACAGGAGCCCGCCCTCAGCACCTGTTCCTGGCGGTTCAACAACTCCAACCTGTGCAGCCAGTCGCGGGCAGCCAGGGTTGTCTGCTCAG
Seq C2 exon
GCTCCCAGAGACATCTCAATCTGTCTACTTCTGAAGTGCCTTCCAGAGTTCCAGTCACGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024670_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.4),PF054546=DAG1=PU(11.8=8.6)
A:
PF0053013=SRCR=WD(100=92.2),PF054546=DAG1=PU(24.1=27.5)
C2:
PF054546=DAG1=FE(18.1=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCGGTTAGTGGATGGTAGC
R:
TGACTGGAACTCTGGAAGGCA
Band lengths:
358-661
Functional annotations
There are 1 annotated functions for this event
PMID: 17371992
Exon 5 skipping (CD6Deltad3) in the third SRCR (scavenger receptor cysteine-rich) domain causes a failure to localize in the immunological synapse and bind CD166.
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