RnoEX6016119 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6554929-6556595:+
Coord C1 exon
chr3:6554929-6554982
Coord A exon
chr3:6555084-6555191
Coord C2 exon
chr3:6556542-6556595
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATGGCCTTTCTTCTTCCCAGGGC
3' ss Score
9.26
5' ss Seq
AAGGTGATG
5' ss Score
5.22
Exon sequences
Seq C1 exon
GGTTTACCAGGACCTCCAGGAGAAAAGGGTGAGACAGGAGACGTGGGCCAGATG
Seq A exon
GGCCCTCCTGGTCCACCAGGCCCCCGAGGACCCTCTGGAGCTCCAGGAGCTGATGGGCCACAGGGTCCTCCAGGAGGGATTGGCAACCCTGGTGCAGTCGGAGAAAAG
Seq C2 exon
GGAGAGCCTGGCGAAGCTGGAGAGCCTGGCCTTCCAGGAGAAGGAGGTCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'73-57,'73-56,74-57=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=PU(11.6=44.4)
A:
PF0139113=Collagen=FE(53.0=100)
C2:
PF0139113=Collagen=FE(25.8=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:
GGTTTACCAGGACCTCCAGGA
R:
GGGACCTCCTTCTCCTGGAA
Band lengths:
105-213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]