RnoEX0022878 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148268539-148269353:+
Coord C1 exon
chr5:148268539-148268574
Coord A exon
chr5:148268927-148268989
Coord C2 exon
chr5:148269309-148269353
Length
63 bp
Sequences
Splice sites
3' ss Seq
CCCCTCTCTTCCTTCTCCAGGGC
3' ss Score
12.74
5' ss Seq
GATGTATGT
5' ss Score
6.31
Exon sequences
Seq C1 exon
GGACCCTCAGGACTCCCGGGCCCAACAGGCCAGAAG
Seq A exon
GGCCAGAAAGGGGAGAAGGGCGATGGAGGCCTCAAAGGACTGCCGGGAAAGCCGGGGCGAGAT
Seq C2 exon
GGTCGGCCAGGAGAGATCTGTGTCATTGGGCCCAAAGGGCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'25-29,'25-28,26-29
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=FE(18.6=100)
A:
PF0139113=Collagen=FE(33.9=100),PF0139113=Collagen=PU(17.5=52.4)
C2:
PF0139113=Collagen=PD(10.2=40.0),PF0139113=Collagen=FE(22.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCTCAGGACTCCCGG
R:
CTTTGGGCCCAATGACACAGA
Band lengths:
72-135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]