MmuEX6073579 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113827226-113834584:+
Coord C1 exon
chr3:113827226-113827270
Coord A exon
chr3:113832292-113832345
Coord C2 exon
chr3:113834477-113834584
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTCATGTTATTTTTTAGGGT
3' ss Score
11.36
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
Exon sequences
Seq C1 exon
GGAGCAGATGGTGTCAGAGGTCTCAAGGGCTCTAAAGGCGAAAAG
Seq A exon
GGTGAAGATGGCTTTCCAGGATTCAAAGGTGACATGGGTCTTAAAGGTGACAGA
Seq C2 exon
GGCGAGGTGGGTCAAGTTGGCCCAAGAGGAGAAGATGGCCCTGAAGGCCCCAAAGGCCGTGCAGGCCCAACTGGAGACCCAGGTCCCTCTGGCCAAGCAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'30-29,'30-28,31-29=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(16.5=100)
A:
PF0139113=Collagen=FE(24.6=100),PF0139113=Collagen=PU(3.3=11.1)
C2:
PF0139113=Collagen=PD(11.6=22.2),PF0139113=Collagen=FE(58.3=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:
TGGTGTCAGAGGTCTCAAGGG
R:
TTCTCTCCTGCTTGGCCAGAG
Band lengths:
144-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: