MmuEX6056181 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97811946-97813067:-
Coord C1 exon
chr15:97812960-97813067
Coord A exon
chr15:97812435-97812488
Coord C2 exon
chr15:97811946-97811999
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGTCATCTTCCTTTCACAGGGT
3' ss Score
10.88
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGTGCTGATGGCCAGCCTGGTGCCAAGGGTGATCAAGGAGAAGCCGGACAGAAAGGAGATGCTGGTGCCCCCGGCCCACAAGGCCCCTCGGGAGCCCCTGGGCCACAG
Seq A exon
GGTCCTACTGGAGTGACTGGTCCTAAGGGAGCCCGAGGTGCCCAAGGTCCCCCG
Seq C2 exon
GGAGCCACCGGATTCCCTGGAGCTGCTGGCCGAGTTGGACCCCCAGGTGCTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'49-45,'49-44,50-45=AN
Average complexity
A_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(25.6=55.6),PF0139113=Collagen=FE(38.0=100)
A:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(12.9=61.1)
C2:
PF0139113=Collagen=FE(18.9=100),PF0139113=Collagen=FE(23.9=100),PF0139113=Collagen=PU(16.4=61.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCAAGGGTGATCAAGGAG
R:
ATTAGCACCTGGGGGTCCAAC
Band lengths:
143-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: