MmuINT0109830 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34575063-34575559:+
Coord C1 exon
chr17:34575063-34575208
Coord A exon
chr17:34575209-34575406
Coord C2 exon
chr17:34575407-34575559
Length
198 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GAGCTTACCTGTTCCCTCAGGGT
3' ss Score
7.48
Exon sequences
Seq C1 exon
ATCCTTGTGTGTGTGTGATGAGGGCTGGACTGGACCAGAATGCGAGACAGAACTGGGTGGCTGCATCTCCACACCCTGTGCCCATGGGGGGACCTGCCACCCACAGCCATCTGGCTACAACTGTACCTGCCCTGCAGGCTACATGG
Seq A exon
GTGAGTCTTCCCTATACCACATACACTCCAGCCTGTAGCCCCACTAATCACACCTGTGGCTGAAATCTCTTCCAGGAGAATTGGTGTGAGCTGTGGGGGAGAAGGAAGAGGCTGGATGGGGCAGGGAGTTTATAGGCTAGGAGAGCAAGAGGATAGAGAAGAGAACCCCACGTTTTCAGAGCTTACCTGTTCCCTCAG
Seq C2 exon
GGTTGACCTGTAGTGAGGAGGTGACAGCTTGTCACTCAGGGCCCTGTCTCAATGGTGGCTCCTGCAGCATCCGTCCTGAGGGCTATTCCTGCACCTGCCTTCCAAGTCACACAGGTCGCCACTGCCAGACTGCCGTGGACCACTGTGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:13
Average complexity
IR
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=PU(90.3=56.0)
A:
NA
C2:
PF0000822=EGF=PD(6.5=3.8),PF0000822=EGF=WD(100=59.6),PF0000822=EGF=PU(9.7=5.8)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TTGTGTGTGTGTGATGAGGGC
R:
CTGTGTGACTTGGAAGGCAGG
Band lengths:
256-454
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