MmuEX6099912 @ mm9
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27872615-27872999:+
Coord C1 exon
chr2:27872615-27872722
Coord A exon
chr2:27872801-27872854
Coord C2 exon
chr2:27872946-27872999
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCAACGGACTCTGTTTCAGGGT
3' ss Score
8.51
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
Exon sequences
Seq C1 exon
GGAGAAGCTGGCTTAGAAGGCCCTCCTGGGAAGACTGGCCCCATTGGCCCCCAAGGGGCCCCTGGGAAGCCTGGCCCCGATGGTCTCCGTGGAATCCCTGGTCCTGTG
Seq A exon
GGTGAGCAAGGCCTCCCAGGATCCCCAGGCCCCGATGGTCCACCCGGCCCCATG
Seq C2 exon
GGTCCTCCAGGACTCCCTGGCCTCAAAGGAGACTCCGGTCCCAAAGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'55-56,'55-55,56-56=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(42.7=100)
A:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=PU(5.7=22.2)
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=FE(24.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTAGAAGGCCCTCCTGG
R:
TTTGGGACCGGAGTCTCCTTT
Band lengths:
144-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: