RnoEX6016131 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6533778-6539144:+
Coord C1 exon
chr3:6533778-6533831
Coord A exon
chr3:6535554-6535607
Coord C2 exon
chr3:6539100-6539144
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTAACTCTCTTCCCTGCAGGGT
3' ss Score
11.4
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGAAAGCTCGGAGTGCCTGGATTACCAGGGTACCCAGGAAGACAAGGGCCAAAG
Seq A exon
GGTTCTATTGGATTCCCTGGCTTCCCGGGCGCCAACGGAGAGAAAGGTGGCAGG
Seq C2 exon
GGGACACCTGGAAAGCCAGGACCACGGGGACAGCGAGGCCCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'53-40,'53-39,55-40=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(27.4=100),PF0139113=Collagen=PU(14.9=61.1)
A:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=PU(10.0=44.4)
C2:
PF0139113=Collagen=FE(18.7=100),PF0139113=Collagen=FE(17.5=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:
CTCGGAGTGCCTGGATTACCA
R:
CTCGCTGTCCCCGTGGTC
Band lengths:
85-139
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]