RnoEX0023392 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6567393-6570824:+
Coord C1 exon
chr3:6567393-6567648
Coord A exon
chr3:6568351-6568463
Coord C2 exon
chr3:6570756-6570824
Length
113 bp
Sequences
Splice sites
3' ss Seq
TCCCTGTCTCTGAAATCCAGGCG
3' ss Score
6.41
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
GGGCCTCCAGGCGAGGTCATCCAGCCCCTGCCAATCCAGGCGTCCAGGACTCGGCGGAACATTGATGCCAGTCAGCTCCTGGATGATGGGGCTGGGGAGAGCTACGTGGATTATGCAGATGGCATGGAAGAGATCTTTGGTTCCCTCAACTCCCTGAAGCTGGAGATTGAGCAGATGAAGCGGCCACTGGGCACACAGCAGAACCCAGCCCGTACCTGCAAGGACCTTCAACTCTGCCATCCTGATTTCCCAGACG
Seq A exon
GCGAATACTGGGTCGATCCCAACCAAGGGTGCTCCAGGGACTCCTTCAAAGTCTACTGCAATTTCACAGCTGGAGGGTCCACGTGCGTCTTCCCTGACAAGAAGTCTGAGGGA
Seq C2 exon
GCCAGAATCACTTCTTGGCCCAAAGAAAACCCAGGTTCCTGGTTCAGTGAATTCAAGCGTGGGAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'90-77,'90-75,91-77
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.721 A=0.026 C2=0.193
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(13.3=9.3),PF0141013=COLFI=PU(12.7=31.4)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=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:
GGACTCGGCGGAACATTGATG
R:
CCTGGGTTTTCTTTGGGCCAA
Band lengths:
245-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]