MmuEX6088967 @ mm9
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94809646-94810127:+
Coord C1 exon
chr11:94809646-94809753
Coord A exon
chr11:94809857-94809910
Coord C2 exon
chr11:94810020-94810127
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTCTCCCCCTCCCTTTACAGGGA
3' ss Score
13.52
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
GGTGAACCTGGCAAACAAGGTCCTTCTGGATCAAGTGGTGAACGCGGTCCCCCTGGCCCCATGGGGCCCCCTGGATTGGCTGGTCCCCCTGGTGAATCTGGACGTGAG
Seq A exon
GGATCCCCTGGTGCTGAAGGCTCCCCTGGAAGGGATGGTGCTCCCGGGGCCAAG
Seq C2 exon
GGTGACCGTGGTGAGACTGGCCCCGCTGGCCCCCCTGGTGCCCCTGGTGCTCCCGGTGCTCCCGGCCCTGTTGGTCCCGCTGGCAAGAATGGCGATCGTGGTGAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'45-43,'45-42,46-43=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:
NO
A:
PF0139113=Collagen=PU(20.0=77.8)
C2:
PF0139113=Collagen=FE(50.0=100)
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:
CTGGTCCCCCTGGTGAATCT
R:
TCACCACGATCGCCATTCTTG
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: