MmuINT0109798 @ mm9
Intron Retention
Gene
ENSMUSG00000038146 | Notch3
Description
Notch gene homolog 3 (Drosophila) [Source:MGI Symbol;Acc:MGI:99460]
Coordinates
chr17:32288231-32288653:-
Coord C1 exon
chr17:32288461-32288653
Coord A exon
chr17:32288383-32288460
Coord C2 exon
chr17:32288231-32288382
Length
78 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CTCACTGCCTCCCCCACCAGGTT
3' ss Score
10.32
Exon sequences
Seq C1 exon
GGCCCCTCTGCAACGTGGAGATCAATGAGTGTGCATCCAGCCCATGTGGAGAGGGTGGCTCCTGTGTGGATGGGGAAAATGGCTTCCACTGCCTCTGTCCACCTGGCTCCCTGCCTCCACTTTGCCTACCTGCGAACCATCCCTGTGCCCACAAGCCCTGTAGTCATGGAGTCTGCCATGATGCACCAGGCGG
Seq A exon
GTGAGGCCCTTTCCCAACTCCCGACCCCTCTTCTGCTGTCTCCAGCCACCTGTCACACCTCACTGCCTCCCCCACCAG
Seq C2 exon
GTTCCGCTGTGTTTGTGAGCCCGGGTGGAGTGGCCCTCGCTGTAGCCAGAGCCTGGCTCCAGATGCCTGTGAGTCCCAGCCCTGCCAGGCTGGTGGCACCTGCACCAGTGATGGAATAGGCTTTCGCTGCACCTGTGCCCCTGGATTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038146-Notch3:NM_008716:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.7=3.1),PF0000822=EGF=WD(100=41.5),PF0000822=EGF=PU(53.3=24.6)
A:
NA
C2:
PF0000822=EGF=PD(43.3=25.0),PF0000822=EGF=PU(90.3=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACAAGCCCTGTAGTCATG
R:
GCCTATTCCATCACTGGTGCA
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: