BtaEX0024726 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8955689-8957678:+
Coord C1 exon
chr7:8955689-8955843
Coord A exon
chr7:8955920-8956142
Coord C2 exon
chr7:8957594-8957678
Length
223 bp
Sequences
Splice sites
3' ss Seq
CCCCTGCTTCCTGCCCGCAGGGG
3' ss Score
12.7
5' ss Seq
GAAGTGAGG
5' ss Score
3.71
Exon sequences
Seq C1 exon
CTCTGTAGTGATGCTGGAGATTGACAACCGTCTGTGCCTGCAGTCACCGGAGAACGACCACTGTTTCCCTGATGCTCAGAGCGCGGCGGACTATTTGGGAGCGTTGTCGGCGGTGGAGCGCCTCGACTTCCCCTACCCACTGCGGGCGGCGCGGG
Seq A exon
GGGAGCCAGTGGAGCTGCCGGAACCAAGCGTGCCGCTGTTACCGCTGCTGGCGGCCAGCGGCATCTTCCTGTTGGTCCTCCTGGTCCTCGGCGTCATGGTGGCCCGCCGCAAGCGTGAGCACAGCACCCTCTGGTTCCCCGAGGGCTTTGCACTGCACAAGGATGTGGCCGTGGGACACAAGGGCCGGCGGGAACCCGTGGGCCAAGACGCTCTGGGCATGAA
Seq C2 exon
GAACATGGCCAAGGGTGAGAGTCTGATGGGGGAGGTGGCCACCGACTGGATGGACACAGAGTGCCCAGAGGCCAAGCGACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971-'31-33,'31-32,32-33
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.200 C2=0.517
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(80.0=100)
A:
PF076847=NODP=PD(13.8=12.0)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAGTGATGCTGGAGATTGACA
R:
CTTCAGTCGCTTGGCCTCTG
Band lengths:
237-460
Functional annotations
There are 1 annotated functions for this event
PMID: 16530045
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: inferred by author. ELM ID: ELMI002959; ELM sequence: LWFP; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development