MmuEX6056176 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97814083-97814900:-
Coord C1 exon
chr15:97814793-97814900
Coord A exon
chr15:97814392-97814445
Coord C2 exon
chr15:97814083-97814136
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCCGGTATTCTCTTCTGCAGGGC
3' ss Score
9.81
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
Exon sequences
Seq C1 exon
GGTGCAGCTGGCCCAGATGGCCCCCCTGGGGCTCAGGGGCCTCCAGGTCTACAGGGAATGCCTGGTGAGAGAGGAGCCGCTGGCATTGCTGGGCCCAAGGGAGACAGA
Seq A exon
GGCGATGTTGGCGAGAAAGGCCCAGAGGGAGCTCCTGGGAAGGATGGCGGCCGA
Seq C2 exon
GGTCTGACTGGGCCCATCGGACCCCCAGGCCCAGCAGGGGCCAACGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'44-40,'44-39,45-40=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=PU(41.4=80.6)
A:
PF0139113=Collagen=FE(24.3=100),PF0139113=Collagen=PU(2.6=11.1)
C2:
PF0139113=Collagen=FE(24.3=100),PF0139113=Collagen=FE(21.8=100)
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:
TGCAGCTGGCCCAGATGG
R:
CCGATGGGCCCAGTCAGA
Band lengths:
126-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: