BtaEX6012354 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000010050 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr2:122580902-122588344:+
Coord C1 exon
chr2:122580902-122580955
Coord A exon
chr2:122588046-122588099
Coord C2 exon
chr2:122588312-122588344
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTGTCTCTTCTTGGCTGCAGGGG
3' ss Score
8.34
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
Exon sequences
Seq C1 exon
GGTCCTCCGGGTGTTCCTGGACCACCAGGCCCTCCTGGAATGCCTGGGCTGCAG
Seq A exon
GGGGTGCCCGGGCACAACGGTTTGCCAGGACAGCCCGGGCTAACTGCAGAACTG
Seq C2 exon
GGATCCTTGCCCATTGAACAGCACCTCCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010050-'54-56,'54-55,55-56=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=0.545
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.8=100)
A:
PF0139113=Collagen=FE(28.8=100)
C2:
PF0139113=Collagen=PD(1.7=9.1)
Main Skipping Isoform:
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:
GGTCCTCCGGGTGTTCCTG
R:
CAGGAGGTGCTGTTCAATGGG
Band lengths:
84-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]