RnoEX6037300 @ rn6
Exon Skipping
Gene
ENSRNOG00000010663 | Col6a5
Description
collagen type VI alpha 5 chain [Source:RGD Symbol;Acc:1565804]
Coordinates
chr8:114585485-114585824:-
Coord C1 exon
chr8:114585798-114585824
Coord A exon
chr8:114585621-114585665
Coord C2 exon
chr8:114585485-114585538
Length
45 bp
Sequences
Splice sites
3' ss Seq
TTCTGACTCTTGTCCCTCAGGGA
3' ss Score
9.12
5' ss Seq
GAAGTGAGC
5' ss Score
5.01
Exon sequences
Seq C1 exon
GGAGTCAAAGGATTTTCGGGAGCTCAG
Seq A exon
GGAGAACACGGAGAGGACGGGCTTGACGGACTGGACGGGGAAGAA
Seq C2 exon
GGATTTTACGGACTTCGTGGGGGAAAAGGACAAAAAGGTGACCCTGGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010663-'19-14,'19-13,20-14=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(10.5=100)
A:
PF0139113=Collagen=FE(19.2=100),PF0139113=Collagen=PU(12.8=73.3)
C2:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=FE(19.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAGGATTTTCGGGAGCTCA
R:
CTGAGAGCCAGGGTCACC
Band lengths:
77-122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]