RnoEX0022839 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31521061-31526649:-
Coord C1 exon
chr20:31526614-31526649
Coord A exon
chr20:31523036-31523062
Coord C2 exon
chr20:31521061-31521111
Length
27 bp
Sequences
Splice sites
3' ss Seq
TCGTGGGGTCGCCCGCCCAGGGT
3' ss Score
3.58
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGGGACAAGGGTGCCATCGGGATGCCTGGACGCGTG
Seq A exon
GGTGTCAAAGGTCAACCAGGCGAGAAG
Seq C2 exon
GGTGCCCCTGGAGATGCGGGGATATCCATCATCGGGCCACGAGGCCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'5-7,'5-6,6-7
Average complexity
C2
Mappability confidence:
88%=75=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(21.6=100)
A:
PF0139113=Collagen=FE(15.7=100)
C2:
PF0139113=Collagen=PD(15.7=47.1),PF0139113=Collagen=PU(8.3=29.4)
Main Skipping Isoform:
ENSRNOT00000046537fB3369
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGGTGCCATCGGGATG
R:
TCGTGGCCCGATGATGGATAT
Band lengths:
73-100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]