RnoEX0022827 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31507153-31510067:-
Coord C1 exon
chr20:31510041-31510067
Coord A exon
chr20:31508259-31508315
Coord C2 exon
chr20:31507153-31507218
Length
57 bp
Sequences
Splice sites
3' ss Seq
TCCTTTGCCTCCCAAACCAGGAG
3' ss Score
8.11
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTCAGTGTGGAGAATACCCACACCGG
Seq A exon
GAGTATCCGAGCGGCACGCTAGCAGCTCTGCGCTCCAACCCGATAATTTCCCTGAAG
Seq C2 exon
CTGCTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCCCCAGTCATTAAAAGGCGGACCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'14-17,'14-16,15-17
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.632 C2=0.773
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.3=55.6)
A:
NO
C2:
PF0139113=Collagen=PU(4.7=13.6)
Main Skipping Isoform:
ENSRNOT00000046537fB3369
Other Inclusion Isoforms:
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:
GGTCAGTGTGGAGAATACCCAC
R:
CCGCCTTTTAATGACTGGGGG
Band lengths:
84-141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]