RnoEX6023523 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148290880-148292626:+
Coord C1 exon
chr5:148290880-148290966
Coord A exon
chr5:148291787-148291831
Coord C2 exon
chr5:148292582-148292626
Length
45 bp
Sequences
Splice sites
3' ss Seq
TCCTTTGGTCTCTTCCACAGGGT
3' ss Score
11.46
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGAGACAACAGTGAGGGAGAACCTGGCTGTCCTGGGAGCCCTGGCCTGCCTGGTCCTCCAGGGATGCCTGGCCAAAGAGGAGAAGAG
Seq A exon
GGTCCACCTGGCATGAGGGGCTCTCCTGGTCTTCCAGGCCCTGTT
Seq C2 exon
GGCCCCCCAGGTTTTCCTGGTGCTGTTGGCTCCCCCGGATTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'66-69,'66-68,68-69=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.855 C2=0.789
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(45.2=96.6)
A:
PF0139113=Collagen=PD(14.0=37.5)
C2:
PF0139113=Collagen=FE(22.6=100),PF0139113=Collagen=PU(13.2=60.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAACAGTGAGGGAGAACC
R:
AATCCGGGGGAGCCAACAG
Band lengths:
126-171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]