RnoEX6037277 @ rn6
Exon Skipping
Gene
ENSRNOG00000023007 | Col6a6
Description
collagen type VI alpha 6 chain [Source:RGD Symbol;Acc:1309172]
Coordinates
chr8:114399948-114402595:-
Coord C1 exon
chr8:114402560-114402595
Coord A exon
chr8:114401756-114401818
Coord C2 exon
chr8:114399948-114400010
Length
63 bp
Sequences
Splice sites
3' ss Seq
TTGGTTCTCTCTCATCACAGGGA
3' ss Score
9.11
5' ss Seq
CAGGTATAC
5' ss Score
7.48
Exon sequences
Seq C1 exon
GTAGTCATGGCCGAAGAGGGACATACAAGCCCACAG
Seq A exon
GGAAATCCAGGCATCACAGGCCCAGATGGACTTGAAGGTTCGCCCGGACTTAAGGGCCCGCAG
Seq C2 exon
GGTCCAAGAGGAGAGGTCGGTGAGAAAGGAGAAAAAGGAGGCTTCGGAATGAAAGGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023007-'22-27,'22-26,23-27=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=PU(13.6=75.0)
A:
PF0139113=Collagen=FE(30.3=100)
C2:
PF0139113=Collagen=FE(36.4=100),PF0139113=Collagen=PU(13.1=38.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGTCATGGCCGAAGAGGGAC
R:
GGGACCTTTCATTCCGAAGCC
Band lengths:
95-158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]