RnoEX0022838 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31458322-31461782:-
Coord C1 exon
chr20:31461696-31461782
Coord A exon
chr20:31460737-31460814
Coord C2 exon
chr20:31458322-31458360
Length
78 bp
Sequences
Splice sites
3' ss Seq
GTGGTTGGTTTTATGAACAGGGC
3' ss Score
6.1
5' ss Seq
CTGGTATGG
5' ss Score
7.13
Exon sequences
Seq C1 exon
GGGGAGAGGGGGAAGAAGGGCTCTAGAGGGCCTAAAGGGGACAAGGGGGACCAAGGAGCACCTGGACTAGACGCCCCCTGCCCACTG
Seq A exon
GGCCACCGAGGTTTTAAAGGAGAGAAAGGGGAACCGGGGCTGCCAGGGCTGGACGGACTGGATGCCCCATGCCCTCTG
Seq C2 exon
GGAGAAGATGGCTTACCAGTCCAAGGCTGCTGGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'43-47,'43-46,44-47
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(40.0=100)
A:
NO
C2:
PF0139113=Collagen=PD(10.0=53.8)
Main Inclusion Isoform:
ENSRNOT00000085877fB3367
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGGAAGAAGGGCTCTAGAG
R:
CTTGTTCCAGCAGCCTTGGAC
Band lengths:
119-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]