HsaALTA1055833-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32213135-32213840:-
Coord C1 exon
chr6:32213688-32213840
Coord A exon
chr6:32213219-32213266
Coord C2 exon
chr6:32213135-32213218
Length
48 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGGAACCCAAACCCTCACAGCCT
3' ss Score
1.35
Exon sequences
Seq C1 exon
GACCCACCTGTAGTGAGGAGATGACAGCTTGTCACTCAGGGCCATGTCTCAATGGCGGCTCCTGCAACCCTAGCCCTGGAGGCTACTACTGCACCTGCCCTCCAAGCCACACAGGGCCCCAGTGCCAAACCAGCACTGACTACTGTGTGTCTG
Seq A exon
CCTCCTCTCTCCAGCCCCGTGCTTCAATGGGGGTACCTGTGTGAACAG
Seq C2 exon
GCCTGGCACCTTCTCCTGCCTCTGTGCCATGGGCTTCCAGGGCCCGCGCTGTGAGGGAAAGCTCCGCCCCAGCTGTGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301-20-32,20-31,20-30-3/3
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(5.9=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
Mouse
(mm9)
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:
TCACTCAGGGCCATGTCTCAA
R:
ACAGAGGCAGGAGAAGGTGC
Band lengths:
147-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains