BtaEX0009656 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013183 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr7:40693617-40697792:-
Coord C1 exon
chr7:40697766-40697792
Coord A exon
chr7:40695810-40695881
Coord C2 exon
chr7:40693617-40693733
Length
72 bp
Sequences
Splice sites
3' ss Seq
AACACCTATTTGCTGACTAGATG
3' ss Score
4.31
5' ss Seq
AAGGTAGAC
5' ss Score
7.07
Exon sequences
Seq C1 exon
GGCGCACCAGGAGACTTTGGCCCCCAG
Seq A exon
ATGGTTTTCCCGAGGCTCAATCTGGACTTTATAAGTAGAGACCATCACATGTACAGTCGCCGGATCCTCAAG
Seq C2 exon
GGAGATCCAGGGCAAGATGGAGCTGCTGGGCCTCCAGGGCCTCCAGGACCCCCTGGGGCCCGGGGCCCTCCTGGCGACACTGGGAAAGATGGCCCCAGGGGAGCACCAGGCCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013183_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(13.1=100)
A:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=PU(1.6=4.2)
C2:
PF0139113=Collagen=PD(52.5=82.1),PF0139113=Collagen=PU(35.6=82.1)
Main Inclusion Isoform:
ENSBTAT00000017548fB1844
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
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:
GCGCACCAGGAGACTTTGG
R:
CTCTGGGCCTGGTGCTCC
Band lengths:
143-215
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development