MmuEX6073551 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113896991-113907795:+
Coord C1 exon
chr3:113896991-113897098
Coord A exon
chr3:113897648-113897701
Coord C2 exon
chr3:113907742-113907795
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTCATTTTCTTTTGTGTAGGGA
3' ss Score
8.92
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
Exon sequences
Seq C1 exon
GGAGAAGCTGGTGCTGAAGGACCTCCTGGGAAAACTGGCCCTGTCGGACCTCAGGGACCTTCTGGAAAGCCTGGTCCAGAAGGTCTTCGAGGCATCCCTGGTCCTGTG
Seq A exon
GGAGAACAAGGTCTCCCAGGTGCTGCTGGCCAAGATGGACCTCCTGGTCCTCTG
Seq C2 exon
GGACCTCCTGGTTTACCTGGTCTCAAAGGTGACCCTGGATCCAAGGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'60-60,'60-59,61-60=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=PU(42.1=88.9)
A:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.6=27.8)
C2:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=FE(22.4=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:
AGGACCTCCTGGGAAAACTGG
R:
TTTCACCCTTGGATCCAGGGT
Band lengths:
143-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: