RnoEX6016113 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6563244-6567648:+
Coord C1 exon
chr3:6563244-6563279
Coord A exon
chr3:6565357-6565410
Coord C2 exon
chr3:6567393-6567648
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTTGTTACTTTCTTTCTAGGGT
3' ss Score
10.63
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GGCCCTCCAGGTCCCAAAGGTGCTAAAGGTTCATCG
Seq A exon
GGTCCCACTGGCCCGAAGGGCGAGGCAGGCCATCCAGGACTCCCTGGTCCACCC
Seq C2 exon
GGGCCTCCAGGCGAGGTCATCCAGCCCCTGCCAATCCAGGCGTCCAGGACTCGGCGGAACATTGATGCCAGTCAGCTCCTGGATGATGGGGCTGGGGAGAGCTACGTGGATTATGCAGATGGCATGGAAGAGATCTTTGGTTCCCTCAACTCCCTGAAGCTGGAGATTGAGCAGATGAAGCGGCCACTGGGCACACAGCAGAACCCAGCCCGTACCTGCAAGGACCTTCAACTCTGCCATCCTGATTTCCCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'88-74,'88-73,89-74=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=0.721
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.3=100)
A:
PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=PD(13.3=9.3),PF0141013=COLFI=PU(12.7=31.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGTCCCAAAGGTGCTAA
R:
AATCCACGTAGCTCTCCCCAG
Band lengths:
143-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]