MmuEX0012156 @ mm9
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:129735795-129736598:+
Coord C1 exon
chr4:129735795-129735830
Coord A exon
chr4:129736201-129736263
Coord C2 exon
chr4:129736554-129736598
Length
63 bp
Sequences
Splice sites
3' ss Seq
CTTGTCTCTTCCTTCTCCAGGGC
3' ss Score
12.63
5' ss Seq
GATGTATGT
5' ss Score
6.31
Exon sequences
Seq C1 exon
GGACCCCCAGGACTCCCAGGACCAACAGGCCAGAAG
Seq A exon
GGCCAGAAAGGGGAGAAGGGTGATGGAGGCCTCAAAGGACTTCCAGGAAAGCCAGGACGAGAT
Seq C2 exon
GGTCGGCCAGGAGAGATCTGTGTCATTGGACCCAAAGGGCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690-'20-21,'20-19,21-21
Average complexity
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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(31.0=81.8)
A:
PF0139113=Collagen=FE(33.3=100),PF0139113=Collagen=PU(20.6=66.7)
C2:
PF0139113=Collagen=PD(18.3=73.3),PF0139113=Collagen=FE(20.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAGGACTCCCAGGAC
R:
TTCTGCCCTTTGGGTCCAATG
Band lengths:
76-139
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: