RnoEX6016132 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6530498-6533831:+
Coord C1 exon
chr3:6530498-6530551
Coord A exon
chr3:6532842-6532949
Coord C2 exon
chr3:6533778-6533831
Length
108 bp
Sequences
Splice sites
3' ss Seq
TCCTCTTTTTCTGACTGCAGGGG
3' ss Score
8.81
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTGAAGACGGCTTCCCTGGGTTTAAAGGCGACATGGGAATAAAGGGTGACCGG
Seq A exon
GGGGAGATCGGCCCACCCGGCCCCCGAGGAGAAGATGGTCCTGAAGGCCCAAAAGGTCGAGGTGGTCCCAATGGTGATCCTGGTCCCCTGGGGCCCACCGGGGAGAAG
Seq C2 exon
GGAAAGCTCGGAGTGCCTGGATTACCAGGGTACCCAGGAAGACAAGGGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'50-38,'50-37,52-38=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(21.8=100),PF0139113=Collagen=FE(24.6=100)
A:
PF0139113=Collagen=PD(10.3=22.2),PF0139113=Collagen=PD(42.0=80.6)
C2:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(14.9=61.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCTTCCCTGGGTTTAAAGG
R:
CTTTGGCCCTTGTCTTCCTGG
Band lengths:
100-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]