RnoEX0022846 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31477361-31480259:-
Coord C1 exon
chr20:31480116-31480259
Coord A exon
chr20:31479497-31479595
Coord C2 exon
chr20:31477361-31477405
Length
99 bp
Sequences
Splice sites
3' ss Seq
AGCTCTTTGTCGATCTATAGGGT
3' ss Score
7.07
5' ss Seq
ACAGTAAGG
5' ss Score
5.42
Exon sequences
Seq C1 exon
GGGCCTCGAGGAAAACCAGGAGATATGGGGCCTGCTGGTCCTCAAGGACCCCCAGGAAAGGACGGGCCTCCAGGAATGAAGGGAGAGGTTGGACCTCCAGGAAATCCAGGGGAGAAAGGGGAGACAGGACAAGCAGGCCCCCCG
Seq A exon
GGTCTAGACGGCCCAACTGGGGAGAAAGGAGAACCAGGTGATGAAGGGAGGCCTGGAGCGACAGGATTGCCTGGGCCCATCGGGCTCCCGGGATTCACA
Seq C2 exon
GGAGAGAAAGGAGAGGCTGGGGAGAAAGGTGACCCAGGAGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552_MULTIEX4-1/2=C1-2
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(37.7=47.9),PF0139113=Collagen=PU(60.3=91.7),PF0139113=Collagen=PU(6.3=10.4)
A:
PF0139113=Collagen=PD(37.0=81.8),PF0139113=Collagen=FE(40.5=100)
C2:
PF0139113=Collagen=FE(17.7=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:
GCCTCGAGGAAAACCAGGAGA
R:
TTCTCCCCAGCCTCTCCTTTC
Band lengths:
168-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]