MmuEX6024020 @ mm9
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45391442-45392033:+
Coord C1 exon
chr1:45391442-45391495
Coord A exon
chr1:45391606-45391659
Coord C2 exon
chr1:45391980-45392033
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTGACTGTCACTTTTGTAGGGT
3' ss Score
8.74
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGTGCCCCTGGCAAGAATGGAGAACGGGGTGGCCCTGGAGGACCTGGCCTTCCA
Seq A exon
GGTCCTGCTGGAAAGAATGGGGAGACTGGACCTCAGGGTCCCCCAGGACCTACT
Seq C2 exon
GGCCCAGCTGGTGACAAGGGAGATTCTGGACCCCCTGGTCCACAAGGATTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'27-26,'27-25,28-26=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=PD(8.3=27.8),PF0139113=Collagen=FE(22.7=100)
A:
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:
CCCCTGGCAAGAATGGAGAAC
R:
TAATCCTTGTGGACCAGGGGG
Band lengths:
101-155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: