MmuEX6024015 @ mm9
Exon Skipping
Gene
ENSMUSG00000026043 | Col3a1
Description
collagen, type III, alpha 1 [Source:MGI Symbol;Acc:MGI:88453]
Coordinates
chr1:45394271-45395472:+
Coord C1 exon
chr1:45394271-45394378
Coord A exon
chr1:45394803-45394856
Coord C2 exon
chr1:45395419-45395472
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGCTTGCTTTTGATTCGCAGGGT
3' ss Score
8.07
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
GGCCCTGCTGGTCCCCCTGGCCCTCCTGGTGCTTCTGGTTCTCCTGGTCTGCAAGGGATGCCAGGGGAAAGAGGAGGTCCTGGAAGTCCTGGCCCAAAGGGTGAAAAG
Seq A exon
GGTGAACCAGGTGGTGCAGGTGCTGACGGAGTTCCAGGAAAGGATGGGCCAAGG
Seq C2 exon
GGTCCTGCTGGCCCTATTGGTCCCCCTGGCCCAGCTGGTCAGCCTGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026043-'33-32,'33-31,34-32=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(14.1=61.1)
C2:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(3.0=11.1)
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:
TGCTTCTGGTTCTCCTGGTCT
R:
CTTATCTCCAGGCTGACCAG
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: