RnoEX0023117 @ rn6
Exon Skipping
Gene
ENSRNOG00000007657 | Col27a1
Description
collagen type XXVII alpha 1 chain [Source:RGD Symbol;Acc:735115]
Coordinates
chr5:79129980-79131998:+
Coord C1 exon
chr5:79129980-79130033
Coord A exon
chr5:79131653-79131706
Coord C2 exon
chr5:79131945-79131998
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTTGCTGTCTCTGTCACAGGGA
3' ss Score
10.34
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
Exon sequences
Seq C1 exon
GGGCTTATGGGATTTGTTGGTCTGGTTGGAGAGCCTGGAATTGTTGGGGAGAAG
Seq A exon
GGAGACCGTGGAGTGATGGGACCCCCAGGGGCACCTGGACCCAAGGGGTCGATG
Seq C2 exon
GGCCATCCTGGAACACCTGGTGGTGTTGGGGACCCTGGAGAGCCTGGACCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007657-'36-33,'36-32,37-33
Average complexity
S
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(20.0=88.9),PF0139113=Collagen=FE(27.0=100)
A:
PF0139113=Collagen=FE(19.8=100)
C2:
PF0139113=Collagen=FE(21.5=100),PF0139113=Collagen=PU(12.8=55.6)
Main Skipping Isoform:
NA
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:
GGGCTTATGGGATTTGTTGGTCT
R:
CCAGGGTCCAGGCTCTCC
Band lengths:
108-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]