MmuEX6073575 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113841318-113841715:+
Coord C1 exon
chr3:113841318-113841371
Coord A exon
chr3:113841496-113841540
Coord C2 exon
chr3:113841662-113841715
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTTTGAACTCTCTTTTTCAGGGA
3' ss Score
10.94
5' ss Seq
ACGGTGGGT
5' ss Score
8.27
Exon sequences
Seq C1 exon
GGATCCACTGGATTTCCTGGATTTCCAGGTGCCAACGGGGAGAAAGGTGCCCGG
Seq A exon
GGAATTGCTGGCAAACCAGGCCCCCGGGGACAGCGTGGTCCAACG
Seq C2 exon
GGTCCTCGAGGTTCCAGAGGCGCCAGAGGTCCCACGGGAAAACCTGGTCCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'35-34,'35-33,36-34=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.813 A=1.000 C2=0.934
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.7=100)
A:
PF0139113=Collagen=PD(6.6=40.0)
C2:
NO
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:
GGATCCACTGGATTTCCTGGA
R:
CTTCGGACCAGGTTTTCCCG
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: