RnoEX0023383 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6549110-6553108:+
Coord C1 exon
chr3:6549110-6549217
Coord A exon
chr3:6551633-6551740
Coord C2 exon
chr3:6553055-6553108
Length
108 bp
Sequences
Splice sites
3' ss Seq
GAATTGCCTGTCCTCTCTAGGGA
3' ss Score
8.26
5' ss Seq
AAGGTATGG
5' ss Score
9.26
Exon sequences
Seq C1 exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCTGCTGGACCCATTGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGGGTTCCT
Seq A exon
GGAGAGAAAGGTCCGCAAGGCCCGGCTGGCCGAGATGGCCTGCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCCGTGGGTCCTCCTGGAGAAGATGGAGATAAG
Seq C2 exon
GGAGAGATCGGAGAGCCCGGGCAGAAAGGGAGCAAGGGCGACAAAGGCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'65-52,'65-51,67-52
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(23.6=47.2),PF0139113=Collagen=FE(38.0=100)
A:
PF0139113=Collagen=FE(38.0=100)
C2:
PF0139113=Collagen=PD(1.1=5.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGGGAGAGAGGACCAG
R:
CTCGCCTTTGTCGCCCTTG
Band lengths:
154-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]