MmuEX6073577 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113834477-113841371:+
Coord C1 exon
chr3:113834477-113834584
Coord A exon
chr3:113836054-113836107
Coord C2 exon
chr3:113841318-113841371
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTATTTTTCATAATTTTAGGGA
3' ss Score
9.08
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
GGCGAGGTGGGTCAAGTTGGCCCAAGAGGAGAAGATGGCCCTGAAGGCCCCAAAGGCCGTGCAGGCCCAACTGGAGACCCAGGTCCCTCTGGCCAAGCAGGAGAGAAG
Seq A exon
GGAAAACTTGGGGTTCCAGGATTGCCGGGATATCCAGGAAGACAAGGTCCAAAG
Seq C2 exon
GGATCCACTGGATTTCCTGGATTTCCAGGTGCCAACGGGGAGAAAGGTGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'32-32,'32-30,33-32=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=0.978 C2=0.813
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(11.6=22.2),PF0139113=Collagen=FE(58.3=100)
A:
PF0139113=Collagen=FE(18.7=100)
C2:
PF0139113=Collagen=FE(18.7=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:
TCAAGTTGGCCCAAGAGGAGA
R:
CGTTGGCACCTGGAAATCCA
Band lengths:
134-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: