RnoEX6016123 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6547962-6551740:+
Coord C1 exon
chr3:6547962-6548015
Coord A exon
chr3:6549110-6549217
Coord C2 exon
chr3:6551633-6551740
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATTTTCTTACTGCACTTTAGGGT
3' ss Score
8.43
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGAGCACTCGGACTGAAAGGCAGCGAAGGCCCCCCTGGCCCCCCAGGTCCTGCG
Seq A exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCTGCTGGACCCATTGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGGGTTCCT
Seq C2 exon
GGAGAGAAAGGTCCGCAAGGCCCGGCTGGCCGAGATGGCCTGCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCCGTGGGTCCTCCTGGAGAAGATGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'64-51,'64-50,65-51=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(23.6=100),PF0139113=Collagen=PU(18.5=94.4)
A:
PF0139113=Collagen=PD(23.6=47.2),PF0139113=Collagen=FE(38.0=100)
C2:
PF0139113=Collagen=FE(38.0=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:
GGAGCACTCGGACTGAAAGG
R:
CTTATCTCCATCTTCTCCAGGAGGA
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]