RnoEX6016120 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6554113-6555191:+
Coord C1 exon
chr3:6554113-6554220
Coord A exon
chr3:6554929-6554982
Coord C2 exon
chr3:6555084-6555191
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCACCATTTTCTGTCCACAGGGT
3' ss Score
11.85
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GGAGCAGATGGTGAACCTGGCCCTCGTGGACAGCAGGGCCTGTTTGGGCAGAAAGGAGATGAAGGTTCAAGAGGTTTCCCAGGACCGCCAGGGCCAGTGGGCTTGCAG
Seq A exon
GGTTTACCAGGACCTCCAGGAGAAAAGGGTGAGACAGGAGACGTGGGCCAGATG
Seq C2 exon
GGCCCTCCTGGTCCACCAGGCCCCCGAGGACCCTCTGGAGCTCCAGGAGCTGATGGGCCACAGGGTCCTCCAGGAGGGATTGGCAACCCTGGTGCAGTCGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'72-56,'72-55,73-56=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(52.2=100)
A:
PF0139113=Collagen=PU(11.6=44.4)
C2:
PF0139113=Collagen=FE(53.0=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:
AAGAGGTTTCCCAGGACCGC
R:
CTTTTCTCCGACTGCACCAGG
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]