MmuEX6073561 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113870400-113884313:+
Coord C1 exon
chr3:113870400-113870507
Coord A exon
chr3:113876268-113876321
Coord C2 exon
chr3:113884260-113884313
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTAATTATGTTTTTGTAGGGG
3' ss Score
7.66
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
Exon sequences
Seq C1 exon
GGAGGCGATGGTGAGCCAGGTCCCCGAGGACAGCAGGGAATGTTTGGACAAAAAGGTGATGAGGGCGCACGAGGTTTCCCAGGACTTCCTGGCCCCATAGGTCTTCAG
Seq A exon
GGGTTGCCAGGCCCACCAGGTGAAAAGGGCGAAAATGGAGACGTTGGCCCCATG
Seq C2 exon
GGTCCACCAGGTCCTCCTGGCCCACGAGGCCCTCAAGGTCCCAATGGAGCTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'50-50,'50-49,51-50=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(40.2=100)
A:
PF0139113=Collagen=FE(19.5=100)
C2:
PF0139113=Collagen=FE(18.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGACAGCAGGGAATGTTT
R:
TCAGCTCCATTGGGACCTTGA
Band lengths:
137-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: