Special

MmuEX6073586 @ mm9

Exon Skipping

Gene
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113817852-113818702:+
Coord C1 exon
chr3:113817852-113817905
Coord A exon
chr3:113818404-113818448
Coord C2 exon
chr3:113818649-113818702
Length
45 bp
Sequences
Splice sites
3' ss Seq
CATTTTGCTCTTCATTGAAGGGT
3' ss Score
7.01
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
GGTCCAAGAGGCTTGCTGGGACCAAGGGGAACTCCAGGACCCCCTGGGCAGCCT
Seq A exon
GGTATCGGAGGTATAGATGGCCCCCAAGGACCAAAAGGAAACATG
Seq C2 exon
GGTCCCCAAGGGGAGCCTGGACCACCAGGTCAGCAAGGAAATCCAGGACCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'23-22,'23-21,24-22=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(23.6=100),PF0139113=Collagen=FE(23.0=100)
A:
PF0139113=Collagen=FE(16.5=100),PF0139113=Collagen=PU(16.1=93.3)
C2:
PF0139113=Collagen=PD(6.9=27.8),PF0139113=Collagen=FE(23.0=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCAAGAGGCTTGCTGG
R:
TTGAGGTCCTGGATTTCCTTGC
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]