RnoEX6016122 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6551633-6554020:+
Coord C1 exon
chr3:6551633-6551740
Coord A exon
chr3:6553055-6553108
Coord C2 exon
chr3:6553967-6554020
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCCTGTCTGCCCACCCCCAGGGA
3' ss Score
10.02
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GGAGAGAAAGGTCCGCAAGGCCCGGCTGGCCGAGATGGCCTGCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCCGTGGGTCCTCCTGGAGAAGATGGAGATAAG
Seq A exon
GGAGAGATCGGAGAGCCCGGGCAGAAAGGGAGCAAGGGCGACAAAGGCGAGCAG
Seq C2 exon
GGTCCTCCTGGGCCTACCGGTCCTCAAGGCCCCATTGGGCAGCCAGGCCCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'67-53,'67-52,68-53=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(38.0=100)
A:
PF0139113=Collagen=PD(1.1=5.6)
C2:
PF0139113=Collagen=PU(16.4=61.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGAAAGGTCCGCAAG
R:
CCAATGGGGCCTTGAGGAC
Band lengths:
146-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]