RnoEX6039577 @ rn6
Exon Skipping
Gene
ENSRNOG00000003736 | Col5a2
Description
collagen type V alpha 2 chain [Source:RGD Symbol;Acc:70921]
Coordinates
chr9:52108307-52109265:-
Coord C1 exon
chr9:52109212-52109265
Coord A exon
chr9:52108995-52109048
Coord C2 exon
chr9:52108307-52108360
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATGTAAAATCTACTTTATAGGGT
3' ss Score
5.67
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCTTCCTGGTTCCTTGGGACCTCCAGGTCCTGCAGGCCCTACTGGAGAAAAG
Seq A exon
GGTGAACCTGGTCCTAGAGGATTAGTTGGCCCTCCTGGCTCCCGTGGCAATCCT
Seq C2 exon
GGTTCTCGGGGGGAAAATGGTCCAACTGGAGCTGTTGGTTTTGCTGGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003736-'49-50,'49-49,50-50=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(24.3=100),PF0139113=Collagen=PU(3.1=11.1)
A:
PF0139113=Collagen=PD(8.6=33.3),PF0139113=Collagen=FE(26.6=100)
C2:
PF0139113=Collagen=FE(26.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTTCCTGGTTCCTTGGGA
R:
CTGGGGTCCAGCAAAACCAAC
Band lengths:
108-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]