MmuINT0109845 @ mm9
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
Notch gene homolog 4 (Drosophila) [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34722850-34723619:+
Coord C1 exon
chr17:34722850-34723154
Coord A exon
chr17:34723155-34723471
Coord C2 exon
chr17:34723472-34723619
Length
317 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGC
5' ss Score
6.32
3' ss Seq
GGACCTTTCTGTCTCCCTAGCTC
3' ss Score
8.64
Exon sequences
Seq C1 exon
ATGGGGTGACACCCCTGATGTCAGCCGTCTTCTGTGGGGGAGTGCAGTCCACGACTGGGGCTAGTCCACAGAGACTGGGGCTAGGAAATCTGGAACCCTGGGAACCACTGCTGGATAGAGGGGCCTGCCCCCAGGCTCACACTGTGGGCACTGGAGAGACGCCTCTGCACCTAGCTGCCAGATTCTCTCGGCCAACCGCTGCCCGCCGCCTCCTTGAGGCTGGAGCCAACCCCAACCAGCCAGACCGCGCTGGGCGCACCCCACTTCACACTGCTGTGGCTGCCGACGCTCGGGAGGTTTGCCAG
Seq A exon
GTCGGCACATATCGGGGTCTCTAAAGGAAGTAGGAGTACGCTTACATATAAAACAGAGAGGTCTTCTCTGGGGTTTGACAAAGAGGAAACAGACTGGAGACCTGAAGGTGGCAGGTAGCGACTGGCTTCGGAGCTGATGGGCCTATAACCCCAGCACTGGGGAGGTGGGGGTAGATAGATCTCTATGTGTCCCAGACTAGCCTGGGCTGCGTAAGAAGACATTGTCTCAAAACAAAGACAGGCAACAAAAGCGTGAGGGAGCCTGACCTAGAAGCCCAGGGTACCCTAGGGGTCACAGGACCTTTCTGTCTCCCTAG
Seq C2 exon
CTCCTATTGGCCAGCAGACAGACTACGGTGGACGCCCGCACAGAGGACGGGACTACACCTTTGATGCTGGCTGCCAGGCTGGCCGTGGAGGACCTGGTTGAAGAATTGATCGCAGCCCGAGCAGATGTAGGAGCCAGGGATAAAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468-Notch4:NM_010929:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.608 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(82.1=76.5)
A:
NA
C2:
PF127962=Ank_2=PD(15.8=30.0),PF127962=Ank_2=PU(31.2=58.0)
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:
GATGTCAGCCGTCTTCTGTGG
R:
AAGGTGTAGTCCCGTCCTCTG
Band lengths:
350-667
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: