MmuEX6107610 @ mm10
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:181015427-181015857:+
Coord C1 exon
chr2:181015427-181015462
Coord A exon
chr2:181015543-181015578
Coord C2 exon
chr2:181015690-181015857
Length
36 bp
Sequences
Splice sites
3' ss Seq
AAATCACGTCCTCTTTCTAGGGA
3' ss Score
8
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
Exon sequences
Seq C1 exon
GGTCTACCAGGGTCCAAAGGTGAACGAGGAGAGAAG
Seq A exon
GGAGAGCCACAGTCCCTTGCCACCATCTTCCAGCTG
Seq C2 exon
CACATGTGCTGAAGCTGAATTCCTTCCTCCATGAGAATGCCCGTCCCCCAATGCCCTTCATGGCAGAGACAGCTAAGCTAGGCAGACCCAGATCTATAGATCCTGGATTACACAACGAGGCTCTACTTCCTGGAGACTGGGGACATATCCTCCGCCCTGAGGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'45-53,'45-52,46-53
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=0.511 C2=0.912
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.6=100)
A:
PF0139113=Collagen=PD(6.8=17.4)
C2:
NO
Main Skipping Isoform:
NA
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:
GGTCTACCAGGGTCCAAAGGT
R:
TCTGGGTCTGCCTAGCTTAGC
Band lengths:
128-164
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