BtaEX6040013 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013183 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr7:40678184-40681408:-
Coord C1 exon
chr7:40681382-40681408
Coord A exon
chr7:40678540-40678593
Coord C2 exon
chr7:40678184-40678270
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCTTTAATCTTTTTGACAGGGT
3' ss Score
8.06
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
Exon sequences
Seq C1 exon
GGCAGACCCGGGGAGCCAGGACTAGAT
Seq A exon
GGTTTCCCTGGACCTCGAGGAGAAAAAGGAGACCGGAGCGAGCGTGGAGAGAAG
Seq C2 exon
GGGGATCGCGGTGTCCCGGGTCGGAAAGGAATGAAAGGCCAGAAGGGCGAGCCGGGACCCCCAGGCCTGGACCAGCCGTGTCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013183-'25-22,'25-21,26-22=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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(11.3=100)
A:
PF0139113=Collagen=FE(23.9=100)
C2:
PF0139113=Collagen=PD(40.3=86.2)
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:
CCCGGGGAGCCAGGACTA
R:
CACAGGACACGGCTGGTC
Band lengths:
108-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]