MmuEX6073565 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113861003-113868207:+
Coord C1 exon
chr3:113861003-113861110
Coord A exon
chr3:113867267-113867374
Coord C2 exon
chr3:113868154-113868207
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATCTTGTGCTTTCAATGCAGGGA
3' ss Score
8.32
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
GGCTCTCCTGGAGAGCGAGGCTCAGCAGGCACAGCAGGCCCAATTGGTTTGCCAGGACGTCCAGGCCCCCAGGGTCCTCCTGGTCCAGCTGGAGAAAAAGGTGCTCCT
Seq A exon
GGAGAAAAGGGTCCCCAGGGTCCTGCAGGTAGAGATGGTGTCCAAGGCCCTGTGGGTCTCCCAGGACCTGCTGGTCCTGCTGGCTCTCCTGGAGAAGATGGAGACAAG
Seq C2 exon
GGTGAAATTGGTGAACCAGGCCAAAAGGGCAGCAAAGGTGACAAAGGCGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'46-45,'46-44,47-45=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(30.0=58.3)
A:
NO
C2:
PF0139113=Collagen=PU(16.1=77.8)
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:
TCTCCTGGAGAGCGAGGCT
R:
TTCGCCTTTGTCACCTTTGCT
Band lengths:
156-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: