RnoEX0022829 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31492073-31502168:-
Coord C1 exon
chr20:31502133-31502168
Coord A exon
chr20:31493756-31493800
Coord C2 exon
chr20:31492073-31492105
Length
45 bp
Sequences
Splice sites
3' ss Seq
TCTCTCGTTTCATTTTTCAGGGA
3' ss Score
11.83
5' ss Seq
AAGGTACCC
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGAGACCCAGGGATCCAGGGCTATCATGGCCGCAAG
Seq A exon
GGAGAGCGGGGCTTGCCAGGAATGCCAGGCAAGCATGGAGCCAAG
Seq C2 exon
GGTGCTCCTGGGATTGCCGTGGCTGGGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'19-23,'19-22,20-23
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=FE(17.2=100),PF0139113=Collagen=FE(19.0=100),PF0139113=Collagen=PU(3.1=16.7)
A:
PF0139113=Collagen=PD(3.1=13.3),PF0139113=Collagen=FE(24.1=100),PF0139113=Collagen=FE(21.9=100)
C2:
PF0139113=Collagen=PD(10.3=54.5),PF0139113=Collagen=FE(15.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACCCAGGGATCCAGG
R:
TTCATCCCAGCCACGGCAAT
Band lengths:
68-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]