MmuEX0012168 @ mm9
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:129757820-129760419:+
Coord C1 exon
chr4:129757820-129757864
Coord A exon
chr4:129758679-129758723
Coord C2 exon
chr4:129760366-129760419
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTGCCTGTTTCTCCCACCAGGGC
3' ss Score
11.94
5' ss Seq
CCCGTAAGA
5' ss Score
5.66
Exon sequences
Seq C1 exon
GGTCCACCTGGCATGAGGGGCTCTCCCGGTCCTCCAGGCCCTATT
Seq A exon
GGCCCCCCAGGTTTTCCTGGTGCTGTTGGCTCCCCCGGATTGCCC
Seq C2 exon
GGGCTTCAAGGGGAGCGAGGCCTCACGGGCCTGACTGGAGACAAAGGAGAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690_CASSETTE4
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(21.9=100)
A:
PF0139113=Collagen=FE(23.0=100),PF0139113=Collagen=PU(13.2=60.0)
C2:
PF0139113=Collagen=PD(3.2=11.1),PF0139113=Collagen=FE(23.3=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:
TCCACCTGGCATGAGGGG
R:
CTCCTTTGTCTCCAGTCAGGC
Band lengths:
92-137
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: