RnoEX0022886 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148290436-148290966:+
Coord C1 exon
chr5:148290436-148290552
Coord A exon
chr5:148290744-148290785
Coord C2 exon
chr5:148290880-148290966
Length
42 bp
Sequences
Splice sites
3' ss Seq
GCCTCTCTTGTCTACTACAGTGC
3' ss Score
8.5
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
AGCATCTGTGGTGACTGTGCCCAGGGCCAGGCAGCCCATTCAGCCTCCCTTCTGGTGAAAGGAGAAAAGGGGGACCAGGGTGTCCCTGGTGTGCCGGGTTTCAACGACTGTGCCAGG
Seq A exon
TGCTTCATAGAGAGGGAGCGCCCGAGAGCTGAGGAGGCCAGG
Seq C2 exon
GGAGACAACAGTGAGGGAGAACCTGGCTGTCCTGGGAGCCCTGGCCTGCCTGGTCCTCCAGGGATGCCTGGCCAAAGAGGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'64-66,'64-65,65-66
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.728 A=0.929 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
PF0139113=Collagen=PU(4.7=14.3)
C2:
PF0139113=Collagen=PU(45.2=96.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGTGGTGACTGTGCCC
R:
CCAGGTTCTCCCTCACTGTTG
Band lengths:
141-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]