RnoEX6062725 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31479497-31480565:-
Coord C1 exon
chr20:31480521-31480565
Coord A exon
chr20:31480116-31480259
Coord C2 exon
chr20:31479497-31479595
Length
144 bp
Sequences
Splice sites
3' ss Seq
TACCATTGACATTTCTATAGGGG
3' ss Score
5.65
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGGGAGATTGGATTGCCAGGCCCTCCAGGACACGATGGGGACAAG
Seq A exon
GGGCCTCGAGGAAAACCAGGAGATATGGGGCCTGCTGGTCCTCAAGGACCCCCAGGAAAGGACGGGCCTCCAGGAATGAAGGGAGAGGTTGGACCTCCAGGAAATCCAGGGGAGAAAGGGGAGACAGGACAAGCAGGCCCCCCG
Seq C2 exon
GGTCTAGACGGCCCAACTGGGGAGAAAGGAGAACCAGGTGATGAAGGGAGGCCTGGAGCGACAGGATTGCCTGGGCCCATCGGGCTCCCGGGATTCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'30-35,'30-34,31-35=AN
Average complexity
A_C2
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(23.3=100),PF0139113=Collagen=PU(0.1=0.0)
A:
PF0139113=Collagen=PD(37.7=47.9),PF0139113=Collagen=PU(60.3=91.7),PF0139113=Collagen=PU(6.3=10.4)
C2:
PF0139113=Collagen=PD(37.0=81.8),PF0139113=Collagen=FE(40.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGGATTGCCAGGCCCTC
R:
TGTGAATCCCGGGAGCCC
Band lengths:
139-283
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]