RnoEX6016117 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6557365-6558285:+
Coord C1 exon
chr3:6557365-6557472
Coord A exon
chr3:6557959-6558012
Coord C2 exon
chr3:6558232-6558285
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCTTACCTCTTTCTTCTCAGGGC
3' ss Score
9.95
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
Exon sequences
Seq C1 exon
GGACCTAAAGGAGAAAGAGGGGAGAAGGGAGAGGCTGGCCCCTCTGGTGCTGCTGGACCCCCTGGACCCAAAGGCCCACCTGGAGATGATGGCCCCAAAGGCAGCCCC
Seq A exon
GGCCCCGTGGGCTTTCCTGGAGACCCTGGGCCCCCTGGAGAGCCAGGCCCAGCA
Seq C2 exon
GGTCAAGATGGCCCACCTGGTGACAAAGGGGATGATGGAGAACCTGGGCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'77-60,'77-59,78-60=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=PD(6.1=11.1)
A:
PF0139113=Collagen=FE(17.9=100)
C2:
PF0139113=Collagen=FE(17.9=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:
AAAGAGGGGAGAAGGGAGAGG
R:
CCAGGTTCTCCATCATCCCCT
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]