RnoEX0022834 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31523036-31529594:-
Coord C1 exon
chr20:31529568-31529594
Coord A exon
chr20:31526614-31526649
Coord C2 exon
chr20:31523036-31523062
Length
36 bp
Sequences
Splice sites
3' ss Seq
GTTTCCACCTCCTTCCTCAGGGG
3' ss Score
9.21
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
Exon sequences
Seq C1 exon
GGCCCCACTGGAAGACCTGGACTCCCA
Seq A exon
GGGGACAAGGGTGCCATCGGGATGCCTGGACGCGTG
Seq C2 exon
GGTGTCAAAGGTCAACCAGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'4-6,'4-5,5-6
Average complexity
C1
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(15.7=100)
A:
PF0139113=Collagen=FE(21.6=100)
C2:
PF0139113=Collagen=FE(15.7=100)
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:
GGCCCCACTGGAAGACCT
R:
CTTCTCGCCTGGTTGACCTTT
Band lengths:
54-90
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]