RnoEX6037745 @ rn6
Exon Skipping
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117719039-117719419:+
Coord C1 exon
chr8:117719039-117719074
Coord A exon
chr8:117719158-117719217
Coord C2 exon
chr8:117719312-117719419
Length
60 bp
Sequences
Splice sites
3' ss Seq
GACCCCTCTTTCCCTCAAAGGGC
3' ss Score
8.42
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGTCAAAAAGGGGCTCCAGGACTCAAAGGTCTCAAG
Seq A exon
GGCGAGCCAGGCATTGGGGTTCAGGGCCCCCCTGGCCCAAGTGGTCCTCCAGGTATGAAG
Seq C2 exon
GGAGACTTGGGCCCCCCTGGTGCCCCCGGTGCTCCTGGTATTGTTGGATTTCCTGGTCAGCCAGGACCTCGAGGAGAGACGGGCCAGCCAGGGCCTGTTGGAGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579-'100-96,'100-95,101-96=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(20.0=100)
A:
PF0139113=Collagen=PD(9.1=25.0),PF0139113=Collagen=PU(25.9=75.0)
C2:
PF0139113=Collagen=FE(60.3=100),PF0139113=Collagen=PU(28.3=47.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAAAGGGGCTCCAGGACTC
R:
CTCTCCAACAGGCCCTGGC
Band lengths:
138-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]