RnoEX6023534 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148275999-148277284:+
Coord C1 exon
chr5:148275999-148276130
Coord A exon
chr5:148276789-148276824
Coord C2 exon
chr5:148277177-148277284
Length
36 bp
Sequences
Splice sites
3' ss Seq
TGAGACCATTTTCTCCTCAGGGT
3' ss Score
8.32
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGGGAGCCGTGTGAGCCCTGTGCATCTTTGTCCAAGCTCCAAGATGGGGACACTCAAGTGGTTCACCTGCCCGGCCCAGCTGGAGAGAAGGGAGAGCCTGGGCCCCCGGGCTCCGGGCTGCCTGGGAAGCAG
Seq A exon
GGTAGAGCTGGAGAGCGTGGACTCAAGGGGCAGAAG
Seq C2 exon
GGGGATGCTGGGAATCCAGGAGACCCTGGAACGCCAGGCATCACAGGGCAGCCTGGAATGTCTGGAGAGCCTGGGGTTCGGGGTCCTGCAGGACCAAAAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'45-46,'45-44,46-46=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=PD(13.3=18.2),PF0139113=Collagen=PU(43.1=50.0),PF0139113=Collagen=PU(9.5=13.6)
A:
PF0139113=Collagen=FE(21.6=100),PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=PD(29.4=41.7),PF0139113=Collagen=FE(55.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGAGAAGGGAGAGCCTG
R:
AGGCTCTCCAGACATTCCAGG
Band lengths:
125-161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]