MmuEX6056179 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97812960-97813722:-
Coord C1 exon
chr15:97813669-97813722
Coord A exon
chr15:97813347-97813400
Coord C2 exon
chr15:97812960-97813067
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACTTCCTGGTCATCTTACAGGGT
3' ss Score
8.83
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGAGAAGTCGGACCTCCTGGCCCGTCAGGAAGTACCGGAGCTCGAGGTGCCCCG
Seq A exon
GGTGAACGCGGAGAGACCGGGCCACCTGGACCTGCTGGATTCGCTGGCCCTCCT
Seq C2 exon
GGTGCTGATGGCCAGCCTGGTGCCAAGGGTGATCAAGGAGAAGCCGGACAGAAAGGAGATGCTGGTGCCCCCGGCCCACAAGGCCCCTCGGGAGCCCCTGGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'47-43,'47-42,48-43=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(4.3=16.7),PF0139113=Collagen=FE(21.8=100)
A:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(15.2=77.8)
C2:
PF0139113=Collagen=PD(25.6=55.6),PF0139113=Collagen=FE(38.0=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:
GGAGAAGTCGGACCTCCTGG
R:
CTCCCGAGGGGCCTTGTG
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: