MmuEX6073552 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113896806-113897701:+
Coord C1 exon
chr3:113896806-113896859
Coord A exon
chr3:113896991-113897098
Coord C2 exon
chr3:113897648-113897701
Length
108 bp
Sequences
Splice sites
3' ss Seq
TGTGTTTCCTTTTCAAACAGGGA
3' ss Score
10.45
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
Exon sequences
Seq C1 exon
GGTCCGCCTGGAGCTTCAGGTTCAGAAGGAAGGCAAGGAGAAAAAGGTGCTAAG
Seq A exon
GGAGAAGCTGGTGCTGAAGGACCTCCTGGGAAAACTGGCCCTGTCGGACCTCAGGGACCTTCTGGAAAGCCTGGTCCAGAAGGTCTTCGAGGCATCCCTGGTCCTGTG
Seq C2 exon
GGAGAACAAGGTCTCCCAGGTGCTGCTGGCCAAGATGGACCTCCTGGTCCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'59-59,'59-58,60-59=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:
NO
A:
PF0139113=Collagen=PU(42.1=88.9)
C2:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.6=27.8)
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:
TGGAGCTTCAGGTTCAGAAGGA
R:
AGGAGGTCCATCTTGGCCAG
Band lengths:
91-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: