RnoEX0022840 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31513442-31521111:-
Coord C1 exon
chr20:31521061-31521111
Coord A exon
chr20:31514229-31514264
Coord C2 exon
chr20:31513442-31513468
Length
36 bp
Sequences
Splice sites
3' ss Seq
GCTCTTTTTTTCCCCCCCAGGGC
3' ss Score
11.83
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGTGCCCCTGGAGATGCGGGGATATCCATCATCGGGCCACGAGGCCCCCCT
Seq A exon
GGCCAGCCAGGTACCCGAGGCTTCCCTGGATTCCCG
Seq C2 exon
GGTCCCATTGGTCTTGACGGCAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'7-10,'7-9,9-10
Average complexity
C1
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(15.7=47.1),PF0139113=Collagen=PU(8.3=29.4)
A:
PF0139113=Collagen=FE(18.3=100)
C2:
PF0139113=Collagen=FE(13.3=100)
Main Skipping Isoform:
ENSRNOT00000085877fB3368
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:
CCCTGGAGATGCGGGGATATC
R:
GGTCTGCCGTCAAGACCAATG
Band lengths:
72-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]