MmuEX6024021 @ mm9
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45391059-45391659:+
Coord C1 exon
chr1:45391059-45391157
Coord A exon
chr1:45391442-45391495
Coord C2 exon
chr1:45391606-45391659
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCCTTGCTTTTTTCTTTAGGGT
3' ss Score
11.77
5' ss Seq
CCAGTATGT
5' ss Score
5.8
Exon sequences
Seq C1 exon
GGAAGTCAAGGAGAAAGTGGTCGCCCTGGTCCCCCTGGCCCATCTGGTCCCAGAGGTCAGCCTGGTGTCATGGGTTTCCCTGGTCCTAAAGGAAATGAT
Seq A exon
GGTGCCCCTGGCAAGAATGGAGAACGGGGTGGCCCTGGAGGACCTGGCCTTCCA
Seq C2 exon
GGTCCTGCTGGAAAGAATGGGGAGACTGGACCTCAGGGTCCCCCAGGACCTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'26-25,'26-24,27-25=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(53.3=100),PF0139113=Collagen=PU(10.7=24.2)
A:
PF0139113=Collagen=PD(8.3=27.8),PF0139113=Collagen=FE(22.7=100)
C2:
PF0139113=Collagen=FE(22.7=100)
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:
AGTCAAGGAGAAAGTGGTCGC
R:
CTGAGGTCCAGTCTCCCCATT
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: