BtaALTA0020225-3/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000025424 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr23:26984830-26985307:+
Coord C1 exon
chr23:26984830-26984982
Coord A exon
chr23:26985176-26985255
Coord C2 exon
chr23:26985256-26985307
Length
80 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGGAACCCAACCCCTCACAGCCT
3' ss Score
2.72
Exon sequences
Seq C1 exon
GGCCCACTTGCAGTGAGGAGGTGACAGCCTGTCACTCAGGGCCCTGTCTCAATGGTGGTTCCTGCAGCCCCAGCCCCGGGGGCTACACCTGCACCTGCCCTCTGAGCCACACGGGGCTCCGCTGCCAGACCAGCATTGACCATTGTGCCTCTG
Seq A exon
CCTCCTCTCTCCAGCACTGTGCCTCAATGGGGGCACCTGTGTGAACAAGCCGGGCACCTTCTCCTGCCTCTGCACCCCAG
Seq C2 exon
GCTTCCAGGGCCCACGCTGCGAGGGAAGGACCCGTCCCAGCTGCGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025424-14-19,14-18,14-17-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=3.8),PF0000822=EGF=WD(100=59.6),PF0000822=EGF=PU(9.7=5.8)
A:
NA
C2:
PF0000822=EGF=PD(87.1=67.5),PF0000822=EGF=PU(9.7=7.5)
Main Inclusion Isoform:
NA
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:
ACTTGCAGTGAGGAGGTGACA
R:
TCCTTCCCTCGCAGCGTG
Band lengths:
178-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development