MmuEX6073566 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113856559-113867374:+
Coord C1 exon
chr3:113856559-113856612
Coord A exon
chr3:113861003-113861110
Coord C2 exon
chr3:113867267-113867374
Length
108 bp
Sequences
Splice sites
3' ss Seq
TCCTTGTTTTCATGTTCTAGGGC
3' ss Score
10.84
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTGCACCTGGGCTGAAAGGAGGAGAAGGTCCCCAGGGCCCACAGGGTCCAGTT
Seq A exon
GGCTCTCCTGGAGAGCGAGGCTCAGCAGGCACAGCAGGCCCAATTGGTTTGCCAGGACGTCCAGGCCCCCAGGGTCCTCCTGGTCCAGCTGGAGAAAAAGGTGCTCCT
Seq C2 exon
GGAGAAAAGGGTCCCCAGGGTCCTGCAGGTAGAGATGGTGTCCAAGGCCCTGTGGGTCTCCCAGGACCTGCTGGTCCTGCTGGCTCTCCTGGAGAAGATGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'44-44,'44-43,46-44=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(24.3=100)
A:
PF0139113=Collagen=PD(30.0=58.3)
C2:
NO
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:
GGTGCACCTGGGCTGAAAG
R:
CTTGTCTCCATCTTCTCCAGGA
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: