RnoEX6016127 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6541099-6545222:+
Coord C1 exon
chr3:6541099-6541152
Coord A exon
chr3:6542269-6542322
Coord C2 exon
chr3:6545169-6545222
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTTTTGATTCTTCCCCCAGGGT
3' ss Score
10.15
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
Exon sequences
Seq C1 exon
GGACCCAATGGACCCCAAGGCCCCACCGGCTTCCCTGGACCTAAGGGTCCCCCG
Seq A exon
GGTCCACCAGGCAAGGACGGGCTCCCCGGACATCCTGGGCAGAGAGGGGAGACT
Seq C2 exon
GGTTTCCAAGGCAAGACTGGCCCTCCAGGCCCTCCAGGAGTGGTTGGCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'59-46,'59-44,60-46=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(21.2=100)
A:
PF0139113=Collagen=FE(23.6=100),PF0139113=Collagen=PU(11.6=61.1)
C2:
PF0139113=Collagen=PD(19.4=77.8),PF0139113=Collagen=FE(17.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCCAATGGACCCCAAGG
R:
CTGAGGGCCAACCACTCCT
Band lengths:
108-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]