RnoEX6062721 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31485230-31487632:-
Coord C1 exon
chr20:31487546-31487632
Coord A exon
chr20:31486952-31487005
Coord C2 exon
chr20:31485230-31485274
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCATCTTTTCTTCCTCCCAGGGA
3' ss Score
10.74
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
Exon sequences
Seq C1 exon
GGAGAAAAGGGAGATGCTGGCAACGCCATTGGAGGAGGCAGGGGAGAGCCTGGCCCCCCGGGGCTCCCTGGGCCCCCTGGGCCAAAG
Seq A exon
GGAGAAGCTGGTGTCGATGGACAGGCTGGTCCCCCAGGACAGCAAGGAGACAAG
Seq C2 exon
GGGCAGCCAGGAGCAGCTGGCGAACCGGGACCAACTGGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'24-28,'24-27,25-28=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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(19.0=41.4),PF0139113=Collagen=PU(28.3=58.6)
A:
PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=FE(23.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAAAGGGAGATGCTGGC
R:
CAGTTGGTCCCGGTTCGC
Band lengths:
124-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]