MmuALTD0009478-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000027878 | Notch2
Description
notch 2 [Source:MGI Symbol;Acc:MGI:97364]
Coordinates
chr3:98135437-98137628:+
Coord C1 exon
chr3:98135437-98135827
Coord A exon
chr3:98135828-98135831
Coord C2 exon
chr3:98137275-98137628
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
TCCTCCTCTCTCCTGACTAGGTA
3' ss Score
10.08
Exon sequences
Seq C1 exon
GACTGCGAGTCAGGATGTGCCAGTAACCCCTGCCAGCATGGGGGCACCTGCTATCCTCAGCGCCAGCCTCCTCACTATTCCTGCCGCTGCCCTCCGTCGTTCGGGGGCAGCCACTGCGAACTCTACACAGCCCCCACCAGCACCCCTCCTGCTACCTGTCAGAGTCAGTACTGCGCCGACAAGGCTCGGGATGGCATCTGTGACGAGGCCTGCAATAGTCATGCCTGCCAGTGGGATGGAGGTGACTGTTCCCTCACTATGGAGGACCCCTGGGCCAACTGCACCTCCACTCTTCGCTGCTGGGAATACATCAACAACCAGTGTGATGAGCAGTGCAACACCGCAGAGTGCCTGTTTGACAACTTTGAGTGCCAGAGGAATAGCAAGACGT
Seq A exon
GCAA
Seq C2 exon
GTATGACAAATACTGTGCAGACCACTTCAAAGACAACCACTGTGATCAGGGATGCAACAGCGAGGAGTGTGGCTGGGATGGGCTGGACTGCGCTTCGGACCAGCCTGAGAACCTGGCAGAGGGCACCCTGATCATCGTGGTGCTCCTGCCCCCTGAACAGCTGCTGCAGGATTCGCGAAGCTTCTTGAGGGCCCTGGGCACCCTGCTCCACACCAACTTGCGCATTAAACAAGATTCTCAGGGCGCTCTCATGGTGTACCCCTACTTTGGGGAGAAGTCAGCTGCCATGAAGAAGCAGAAGATGACACGCAGGTCTCTTCCTGAGGAGCAGGAGCAGGAGCAGGAGGTGATAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027878-49-49,50-49-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.092
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(14.7=3.0),PF0006612=Notch=WD(100=21.9),PF0006612=Notch=WD(100=21.9),PF0006612=Notch=PU(15.8=3.6)
A:
NA
C2:
PF0006612=Notch=PD(81.6=26.1),PF068168=NOD=WD(100=47.9),PF076847=NODP=PU(4.9=2.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGAGTGCCTGTTTGACAA
R:
TGCATCCCTGATCACAGTGGT
Band lengths:
106-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types