BtaEX0009650 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013183 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr7:40685740-40689450:-
Coord C1 exon
chr7:40689406-40689450
Coord A exon
chr7:40687907-40687984
Coord C2 exon
chr7:40685740-40685793
Length
78 bp
Sequences
Splice sites
3' ss Seq
TCCTCTTCTTCCTGCCTCAGGGT
3' ss Score
10.15
5' ss Seq
AAGGTAGCG
5' ss Score
6.91
Exon sequences
Seq C1 exon
GGGGAGCCCGGCCACCCAGGCACTGATGGAGCCACGGGGCAGCGG
Seq A exon
GGTCCCCCGGGCCTCAAGGGCGAACAAGGAGACACAGTGGTAATTGACTACGATGGCAGGATCTTGGACGCCCTTAAG
Seq C2 exon
GGTCCTCCTGGGCCACAGGGGCCCCCAGGGCCACCAGGGATCCCCGGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013183-'13-11,'13-10,14-11
Average complexity
C1
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(20.0=100)
A:
PF0139113=Collagen=PD(17.1=46.2),PF0139113=Collagen=PU(5.3=11.5)
C2:
PF0139113=Collagen=FE(29.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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:
GCACTGATGGAGCCACGG
R:
CTTGGCTCCGGGGATCCC
Band lengths:
80-158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development