HsaALTA0005783-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148400 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:7881]
Coordinates
chr9:139396898-139397782:-
Coord C1 exon
chr9:139397634-139397782
Coord A exon
chr9:139396941-139397227
Coord C2 exon
chr9:139396898-139396940
Length
287 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TAAATCCTTTGTCTTAACAGCTC
3' ss Score
8.8
Exon sequences
Seq C1 exon
CTCCATCGTCTACCTGGAGATTGACAACCGGCAGTGTGTGCAGGCCTCCTCGCAGTGCTTCCAGAGTGCCACCGACGTGGCCGCATTCCTGGGAGCGCTCGCCTCGCTGGGCAGCCTCAACATCCCCTACAAGATCGAGGCCGTGCAGA
Seq A exon
CTCAGTGCGAGTGCAGCGATTTGAAGTTGACTAATCCTCCTTCCTTAAAGGAGAAAAAAGTAAAAGCCGTCTCCAGATAGAGTCGGCTGGTGCAGGAGAGAATTTAGCGATAGTTTGCAATTCTGATTAATCGCGTAGAAAATGACCTTATTTTGGAGGGCGGGATGGAGGAGAGTGGGTGAGGAGGCGCCCGGACGCGGAGCCAGTCCGCCGCCCCCCGGCCACCAGCCTGCTGCGTAGCCGCTGCCTGATGTCCGGGCACCTGCCCCTGGCCCCCGTGCCCGCAG
Seq C2 exon
GTGAGACCGTGGAGCCGCCCCCGCCGGCGCAGCTGCACTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148400-29-30,29-29-2/2
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=0.039 A=NA C2=0.260
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(79.4=100)
A:
NA
C2:
PF076847=NODP=PD(14.3=12.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)