MmuEX6073558 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113885531-113888521:+
Coord C1 exon
chr3:113885531-113885584
Coord A exon
chr3:113887776-113887829
Coord C2 exon
chr3:113888414-113888521
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATGTGATATTTTCTTTGTAGGGT
3' ss Score
8.82
5' ss Seq
GGTGTAAGT
5' ss Score
8.07
Exon sequences
Seq C1 exon
GGACCACAAGGACCCCCAGGCTCCATTGGTTCAGTTGGTGTTGTGGGAGACAAG
Seq A exon
GGTGAACCTGGAGAAGCAGGGAACCCAGGGCCCCCTGGGGAAGCTGGCTCTGGT
Seq C2 exon
GGTCTCAAAGGAGAGAGAGGAGAGAAAGGAGAAGCTGGGCCCCCTGGTGCTGCAGGTCCTGCTGGTATTAAGGGGCCACCAGGTGATGATGGGCCCAAGGGGAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'53-53,'53-52,54-53=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(18.5=100),PF0139113=Collagen=PU(8.8=44.4)
A:
PF0139113=Collagen=FE(18.5=100),PF0139113=Collagen=FE(18.7=100)
C2:
PF0139113=Collagen=PD(10.9=27.8),PF0139113=Collagen=FE(38.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCCATTGGTTCAGTTGGT
R:
CTTGGGCCCATCATCACCTG
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: