RnoEX6023525 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148284127-148288468:+
Coord C1 exon
chr5:148284127-148284180
Coord A exon
chr5:148288203-148288256
Coord C2 exon
chr5:148288436-148288468
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGTTTCTTTTCTGCCTCAGGGA
3' ss Score
10.28
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
Exon sequences
Seq C1 exon
GGTCCCCCAGGTGTCCCCGGACCACCAGGTCCCCCCGGAATGCCTGGATTGCAG
Seq A exon
GGAGTGCCTGGACACAACGGTTTGCCAGGACAGCCTGGGCTCACTGCCGAGCTG
Seq C2 exon
GGATCCTTACCCATCGAGCAGCATCTCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'60-62,'60-61,61-62=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=0.600
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(26.2=100)
A:
PF0139113=Collagen=FE(26.2=100)
C2:
PF0139113=Collagen=PD(1.5=9.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTGTCCCCGGACCAC
R:
GAGGAGATGCTGCTCGATGGG
Band lengths:
77-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]