BtaEX6040005 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013183 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr7:40689406-40690468:-
Coord C1 exon
chr7:40690416-40690468
Coord A exon
chr7:40689843-40689906
Coord C2 exon
chr7:40689406-40689450
Length
64 bp
Sequences
Splice sites
3' ss Seq
AGCAGACACCTCTGTTGCAGGGC
3' ss Score
4.17
5' ss Seq
AAGGTGACA
5' ss Score
5.19
Exon sequences
Seq C1 exon
GGGGATGACGGGATACCAGGCCAACCAGGGCTCTCTGGACCCCCAGGGCCCAA
Seq A exon
GGCCAGTCAGGGAGCAAAGGGGCCGCAGGTAGAGAATGGCACAGACAGAGCCCAGGGGCCCAAG
Seq C2 exon
GGGGAGCCCGGCCACCCAGGCACTGATGGAGCCACGGGGCAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013183-'11-9,'11-8,12-9=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.6=100),PF0139113=Collagen=PU(13.8=44.4)
A:
PF0139113=Collagen=PD(10.0=40.9),PF0139113=Collagen=FE(30.0=100)
C2:
PF0139113=Collagen=FE(20.0=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:
CAAGTCTGAAGGCTGCAGTCT
R:
CCCCGTGGCTCCATCAGT
Band lengths:
132-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]