RnoEX6016130 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6539100-6540380:+
Coord C1 exon
chr3:6539100-6539144
Coord A exon
chr3:6539249-6539302
Coord C2 exon
chr3:6540336-6540380
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTCTCTGTCCATCTGTTTAGGGC
3' ss Score
10.81
5' ss Seq
AAGGTATGT
5' ss Score
9.79
Exon sequences
Seq C1 exon
GGGACACCTGGAAAGCCAGGACCACGGGGACAGCGAGGCCCAACG
Seq A exon
GGCCCGAGGGGTGAACGAGGCCCACGGGGCATCACTGGGAAGCCTGGCCCTAAG
Seq C2 exon
GGCAACTCAGGAGGTGATGGCCCAGCCGGCCCTCCTGGTGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'56-42,'56-41,57-42=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(18.7=100),PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=FE(21.2=100)
C2:
PF0139113=Collagen=PD(14.7=73.3),PF0139113=Collagen=FE(17.5=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:
GGGACACCTGGAAAGCCA
R:
GGGCCATCACCTCCTGAGTT
Band lengths:
68-122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]