BtaEX0009657 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013183 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr7:40687907-40690468:-
Coord C1 exon
chr7:40690415-40690468
Coord A exon
chr7:40689406-40689450
Coord C2 exon
chr7:40687907-40687984
Length
45 bp
Sequences
Splice sites
3' ss Seq
GCAGCCATGTGTCTCCACAGGGG
3' ss Score
7.86
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
Exon sequences
Seq C1 exon
GGGGATGACGGGATACCAGGCCAACCAGGGCTCTCTGGACCCCCAGGGCCCAAG
Seq A exon
GGGGAGCCCGGCCACCCAGGCACTGATGGAGCCACGGGGCAGCGG
Seq C2 exon
GGTCCCCCGGGCCTCAAGGGCGAACAAGGAGACACAGTGGTAATTGACTACGATGGCAGGATCTTGGACGCCCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013183_MULTIEX1-2/2=C1-C2
Average complexity
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(23.6=100),PF0139113=Collagen=PU(13.8=44.4)
A:
PF0139113=Collagen=FE(20.0=100)
C2:
PF0139113=Collagen=PD(17.1=46.2),PF0139113=Collagen=PU(5.3=11.5)
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:
GGATACCAGGCCAACCAGGG
R:
TAAGGGCGTCCAAGATCCTGC
Band lengths:
120-165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development