RnoEX0023389 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6560924-6561304:+
Coord C1 exon
chr3:6560924-6561031
Coord A exon
chr3:6561107-6561160
Coord C2 exon
chr3:6561251-6561304
Length
54 bp
Sequences
Splice sites
3' ss Seq
CACCATGGACTCTGTTTCAGGGT
3' ss Score
7.76
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
Exon sequences
Seq C1 exon
GGAGAAGCTGGCTTAGAAGGCCCTCCTGGGAAGACTGGCCCCATTGGTCCCCAAGGGGCCCCTGGGAAGCCTGGCCCTGATGGTCTTCGTGGGATCCCTGGTCCTGTG
Seq A exon
GGTGAGCAAGGCCTCCCAGGATCCCCAGGCCCTGATGGTCCACCCGGCCCCATG
Seq C2 exon
GGTCCTCCAGGACTCCCTGGCCTCAAAGGAGACTCCGGTCCCAAAGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'83-66,'83-65,84-66
Average complexity
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=PD(20.0=52.8)
A:
PF0139113=Collagen=FE(20.5=100)
C2:
PF0139113=Collagen=FE(20.5=100),PF0139113=Collagen=PU(26.2=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:
GAAGACTGGCCCCATTGGTC
R:
TTTTCACCTTTGGGACCGGAG
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]