MmuEX6088972 @ mm9
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94808090-94808637:+
Coord C1 exon
chr11:94808090-94808143
Coord A exon
chr11:94808388-94808495
Coord C2 exon
chr11:94808584-94808637
Length
108 bp
Sequences
Splice sites
3' ss Seq
CCATTCTCCCTCCTGCCTAGGGT
3' ss Score
8.94
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
Exon sequences
Seq C1 exon
GGAGACCGTGGTGAGGCTGGTCCCCCTGGTCCTGCTGGCTTTGCCGGCCCCCCT
Seq A exon
GGTGCTGATGGCCAACCTGGTGCGAAAGGTGAACCTGGTGATACTGGTGTTAAAGGTGATGCTGGTCCTCCTGGCCCTGCTGGTCCTGCTGGACCCCCCGGCCCCATT
Seq C2 exon
GGTAACGTTGGTGCTCCTGGACCCAAAGGTCCTCGTGGTGCTGCTGGTCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'39-37,'39-36,40-37=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(29.8=100),PF0139113=Collagen=PU(9.8=33.3)
A:
PF0139113=Collagen=PD(33.3=55.6),PF0139113=Collagen=PU(23.3=38.9)
C2:
PF0139113=Collagen=FE(28.3=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:
GGAGACCGTGGTGAGGCT
R:
CAGCAGCACCACGAGGAC
Band lengths:
100-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: