MmuEX6056159 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97819717-97821819:-
Coord C1 exon
chr15:97821775-97821819
Coord A exon
chr15:97821344-97821397
Coord C2 exon
chr15:97819717-97819815
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTCCCCTTCTTCTCCCCAGGGT
3' ss Score
11.8
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGTGCTCGGGGTAACGATGGCCAGCCAGGCCCCGCTGGACCTCCG
Seq A exon
GGTCCTGTGGGTCCCGCAGGTGGTCCTGGCTTCCCTGGTGCTCCTGGTGCCAAG
Seq C2 exon
GGCGAAGCTGGTCCCACTGGTGCTCGCGGTCCTGAAGGTGCTCAAGGTTCTCGTGGCGAGCCTGGCAATCCTGGGTCCCCTGGGCCTGCAGGTGCTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'24-22,'24-20,25-22=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=FE(21.2=100),PF0139113=Collagen=PU(8.9=53.3)
A:
PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=FE(18.9=100)
C2:
PF0139113=Collagen=PD(2.5=6.1),PF0139113=Collagen=FE(36.8=100),PF0139113=Collagen=PU(15.2=36.4)
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:
GTGCTCGGGGTAACGATGG
R:
AGAAGCACCTGCAGGCCC
Band lengths:
143-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: