MmuEX6056169 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97816294-97817271:-
Coord C1 exon
chr15:97817173-97817271
Coord A exon
chr15:97816739-97816792
Coord C2 exon
chr15:97816294-97816347
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTCTCGTCCCTCCCTTCAGGGC
3' ss Score
12.28
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGAGCCCCTGGTGAAGACGGTCGCCCTGGACCTCCTGGTCCTCAGGGAGCTCGTGGGCAGCCTGGCGTCATGGGTTTCCCTGGCCCCAAAGGTGCCAAC
Seq A exon
GGCGAGCCTGGCAAAGCTGGTGAGAAGGGTCTGGCTGGCGCTCCTGGTCTGAGA
Seq C2 exon
GGTCTTCCTGGAAAAGACGGTGAGACGGGAGCCGCAGGACCCCCCGGCCCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'36-33,'36-32,38-33=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(32.0=100)
A:
PF0139113=Collagen=PD(5.0=27.8)
C2:
NO
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:
GGAGCCCCTGGTGAAGACG
R:
GGCTCCCGTCTCACCGTC
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: