MmuINT0109846 @ mm9
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
Notch gene homolog 4 (Drosophila) [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34723472-34724159:+
Coord C1 exon
chr17:34723472-34723619
Coord A exon
chr17:34723620-34724061
Coord C2 exon
chr17:34724062-34724159
Length
442 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGC
5' ss Score
6.16
3' ss Seq
GCTCCCACGTGGTACCCTAGGAA
3' ss Score
4.24
Exon sequences
Seq C1 exon
CTCCTATTGGCCAGCAGACAGACTACGGTGGACGCCCGCACAGAGGACGGGACTACACCTTTGATGCTGGCTGCCAGGCTGGCCGTGGAGGACCTGGTTGAAGAATTGATCGCAGCCCGAGCAGATGTAGGAGCCAGGGATAAAAGGG
Seq A exon
GTATGCATGGAGCCGCTGTGTTATTGGAATGTTGGGGAGAGCGGTAAGGAGGTGAAGTTCAAAATACAGGCGCAGTGGGGACAGACTAGAGGCTCTTATGCTGTGGCAGGATGGAGAGCGAGTTTCCCCATCACTGTTAAGTACACATCTTGTCTCAGTCCATGATACGGGAATGGAAGAAGTACCGGCGGGAACCGTAATGGGGATACCGGGGTCCCACCGATCCAGAACAATACCCATTGTCCTGCCCGCGCGCCCATGACGTCACCAGGGCAACACTTGCAGCCGACTGTCGGTTGCCAGGGCAACGCTTCCCGCCTCTGAAGAATCCAAGTAGCTCTCCCTTCCTCCCCCCACCACCAAGGCCAGAACCCGTGGGAAACTAAAAGGTAGGAGTCTGACCCCCAACTGCGGGGTAACCAGCTCCCACGTGGTACCCTAG
Seq C2 exon
GAAAAACTGCACTGCACTGGGCCGCTGCTGTGAACAACGCCCGAGCCGCCCGCTCTCTCCTCCAGGCTGGAGCGGATAAAGATGCCCAGGACAGTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468-Notch4:NM_010929:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.424
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(15.8=30.0),PF127962=Ank_2=PU(31.2=58.0)
A:
NA
C2:
PF127962=Ank_2=FE(34.4=100)
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:
CTCCTATTGGCCAGCAGACAG
R:
CCTACTGTCCTGGGCATCTTT
Band lengths:
246-688
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: