RnoEX0023182 @ rn6
Exon Skipping
Gene
ENSRNOG00000003357 | Col3a1
Description
collagen type III alpha 1 chain [Source:RGD Symbol;Acc:71029]
Coordinates
chr9:52045034-52045638:+
Coord C1 exon
chr9:52045034-52045132
Coord A exon
chr9:52045423-52045476
Coord C2 exon
chr9:52045585-52045638
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCCTTTATCTTTTTTTTAGGGT
3' ss Score
10.86
5' ss Seq
CCAGTATGT
5' ss Score
5.8
Exon sequences
Seq C1 exon
GGAAGTCAAGGAGAAAGTGGTCGCCCTGGTCCTCCTGGCCCATCTGGCCCCAGAGGTCAGCCTGGTGTCATGGGTTTCCCTGGTCCTAAAGGAAATGAT
Seq A exon
GGTGCACCTGGCAAAAACGGAGAACGGGGTGGCCCTGGGGGTCCTGGCCTTCCA
Seq C2 exon
GGTCCTGCTGGAAAGAATGGGGAGACTGGACCTCAGGGTCCCCCAGGACCTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003357-'37-30,'37-29,38-30
Average complexity
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=PU(10.7=24.2)
A:
PF0139113=Collagen=FE(22.7=100)
C2:
PF0139113=Collagen=FE(22.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]