MmuEX6107610 @ mm9
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:180750132-180750562:+
Coord C1 exon
chr2:180750132-180750167
Coord A exon
chr2:180750248-180750314
Coord C2 exon
chr2:180750395-180750562
Length
67 bp
Sequences
Splice sites
3' ss Seq
AAATCACGTCCTCTTTCTAGGGA
3' ss Score
8
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
GGTCTACCAGGGTCCAAAGGTGAACGAGGAGAGAAG
Seq A exon
GGAGAGCCACAGTCCCTTGCCACCATCTTCCAGCTGGTGAGCCAGGCCTGCGAGTCAGCCATACGGA
Seq C2 exon
CACATGTGCTGAAGCTGAATTCCTTCCTCCATGAGAATGCCCGTCCCCCAATGCCCTTCATGGCAGAGACAGCTAAGCTAGGCAGACCCAGATCTATAGATCCTGGATTACACAACGAGGCTCTACTTCCTGGAGACTGGGGACATATCCTCCGCCCTGAGGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'34-38,'34-37,36-38=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.551 C2=0.908
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 Inclusion Isoforms:
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:
ATGTCCCCAGTCTCCAGGAAG
Band lengths:
182-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: