RnoEX0023380 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6532842-6535607:+
Coord C1 exon
chr3:6532842-6532949
Coord A exon
chr3:6533778-6533831
Coord C2 exon
chr3:6535554-6535607
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTTTTTTTCTGCTCCTAGGGA
3' ss Score
10.82
5' ss Seq
AAGGTAATT
5' ss Score
8.83
Exon sequences
Seq C1 exon
GGGGAGATCGGCCCACCCGGCCCCCGAGGAGAAGATGGTCCTGAAGGCCCAAAAGGTCGAGGTGGTCCCAATGGTGATCCTGGTCCCCTGGGGCCCACCGGGGAGAAG
Seq A exon
GGAAAGCTCGGAGTGCCTGGATTACCAGGGTACCCAGGAAGACAAGGGCCAAAG
Seq C2 exon
GGTTCTATTGGATTCCCTGGCTTCCCGGGCGCCAACGGAGAGAAAGGTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'52-39,'52-38,53-39
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(10.3=22.2),PF0139113=Collagen=PD(42.0=80.6)
A:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(14.9=61.1)
C2:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=PU(10.0=44.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGGAGAAGATGGTCCTGA
R:
CTGCCACCTTTCTCTCCGTTG
Band lengths:
138-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]