MmuINT0109833 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34576769-34577568:+
Coord C1 exon
chr17:34576769-34576856
Coord A exon
chr17:34576857-34577417
Coord C2 exon
chr17:34577418-34577568
Length
561 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTTCTCACCCAACCCTCAGACT
3' ss Score
7.69
Exon sequences
Seq C1 exon
CCCCTGCAGGAACAAGGCAACCTGCCAAGACACACCTCGAGGGGCCCGCTGCCTCTGCAGCCCTGGCTATACAGGAAGCAGCTGCCAG
Seq A exon
GTGAGGTGCCATAGGCCAGATGTGTCAGTGAGGGAGACTGGAGAGCTCTAGGTATTTGGATCTTGGGATCTACAGGATGGGCAACAGGGAAACTCGGACAGATGTCCACATGAAGGGATGTGTGGAGGTCCAGGAGCGTCTCACTTGGGTGTGAGGTAAAGGAAGGAAACAAAAGCAGGGTGTGGTCGTGTACGTCTGTAATCCCAACACTTGGGAAACACAGGCAGAAGGATCAGGAGTTCAAGGCCAGCCTCGGCTAAATAGCAAGTTTGAGTTTGAGGCCATCCTGGGGTAGATGAGACCCTACCCTACATGCACACACACACACACACACACACACACACACACACACACACACGCCTGCGGGTGAGGATGTTCGAGGGATAATTTCTCATCTTGGAGGCTGTTCTGAAATGTGAAGCCAGAGGTCAGAGAGGGTCACCAGCCTGGGCCATTTTCGAGCAAGTCACCTTAGAAGCGATTTTGAGGGAACTGCAATTGGAGAGGCTCATCTCTGAGTCCCAGAAGCCTTCCCATCTCCTGTTCTCACCCAACCCTCAG
Seq C2 exon
ACTCTGATAGACTTGTGTGCCCGGAAGCCCTGTCCACACACTGCTCGATGCCTCCAGAGTGGGCCCTCGTTCCAGTGCCTGTGCCTCCAGGGATGGACAGGGGCTCTCTGTGACTTCCCACTGTCCTGCCAGAAGGCCGCGATGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:16
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=PD(87.1=90.0)
A:
NA
C2:
PF0000822=EGF=WD(100=60.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGCAGGAACAAGGCAAC
R:
CTTGGCTCATCGCGGCCT
Band lengths:
238-799
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