RnoEX6022099 @ rn6
Exon Skipping
Gene
ENSRNOG00000007657 | Col27a1
Description
collagen type XXVII alpha 1 chain [Source:RGD Symbol;Acc:735115]
Coordinates
chr5:79074796-79085643:+
Coord C1 exon
chr5:79074796-79074849
Coord A exon
chr5:79084085-79084138
Coord C2 exon
chr5:79085590-79085643
Length
54 bp
Sequences
Splice sites
3' ss Seq
GACTTGTGTTTTTATTTCAGGGA
3' ss Score
9.89
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGTCCTCCTGGGCCATTTGGGAACCCAGGTCTACCTGGACCTCCTGGAGCCAAA
Seq A exon
GGACAGAAAGGGGACCCGGGACTCTCACCAGGACAGGCTCACGATGGGGCAAAG
Seq C2 exon
GGCAACATGGGCTTGCCTGGGCTCGCCGGAAATCCAGGACCCATGGGACGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007657-'8-7,'8-6,9-7=AN
Average complexity
A_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=FE(27.4=100),PF0139113=Collagen=PU(12.6=61.1)
A:
PF0139113=Collagen=PD(19.4=66.7),PF0139113=Collagen=PU(12.1=44.4)
C2:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(2.9=11.1)
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:
CTCCTGGGCCATTTGGGAAC
R:
CGTCCCATGGGTCCTGGATTT
Band lengths:
100-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]