RnoEX0023382 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6547781-6549217:+
Coord C1 exon
chr3:6547781-6547870
Coord A exon
chr3:6547962-6548015
Coord C2 exon
chr3:6549110-6549217
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATATTCTTACTACTTCTCAGGGA
3' ss Score
6.69
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGACCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTCCCCGGCCCCGTG
Seq A exon
GGAGCACTCGGACTGAAAGGCAGCGAAGGCCCCCCTGGCCCCCCAGGTCCTGCG
Seq C2 exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCTGCTGGACCCATTGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGGGTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'63-50,'63-49,64-50
Average complexity
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(29.5=93.3),PF0139113=Collagen=FE(40.3=100)
A:
PF0139113=Collagen=FE(23.6=100),PF0139113=Collagen=PU(18.5=94.4)
C2:
PF0139113=Collagen=PD(23.6=47.2),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:
GATTGCGTGGATTCCCTGGG
R:
ACCCCTTTCTCTCCAGCAGG
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]