RnoEX6016124 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6546402-6548015:+
Coord C1 exon
chr3:6546402-6546509
Coord A exon
chr3:6547781-6547870
Coord C2 exon
chr3:6547962-6548015
Length
90 bp
Sequences
Splice sites
3' ss Seq
AACTCCAGTTCTCTTTTCAGGGT
3' ss Score
7.23
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
Exon sequences
Seq C1 exon
GGTCCCACAGGCGAGACGGGTCCCATGGGAGAGCGTGGCCACCCTGGTCCTCCAGGCCCCCCTGGTGAACAGGGCCTCCCAGGTGCTGCTGGGAAAGAAGGGACGAAG
Seq A exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGACCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTCCCCGGCCCCGTG
Seq C2 exon
GGAGCACTCGGACTGAAAGGCAGCGAAGGCCCCCCTGGCCCCCCAGGTCCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'62-49,'62-48,63-49=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(36.8=100),PF0139113=Collagen=PU(6.9=13.9)
A:
PF0139113=Collagen=PD(29.5=93.3),PF0139113=Collagen=FE(40.3=100)
C2:
PF0139113=Collagen=FE(23.6=100),PF0139113=Collagen=PU(18.5=94.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCACAGGCGAGACGG
R:
CCTTCGCTGCCTTTCAGTCC
Band lengths:
136-226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]