MmuINT0109839 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34582399-34583733:+
Coord C1 exon
chr17:34582399-34582922
Coord A exon
chr17:34582923-34583349
Coord C2 exon
chr17:34583350-34583733
Length
427 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGC
5' ss Score
5.03
3' ss Seq
CATGCCTCCTTTGCCCACAGCCC
3' ss Score
11.04
Exon sequences
Seq C1 exon
GGTTTTGAAGGCCCCACCTGCAGCCACAAAGCCCTTTCCTGCGGCATCCATCACTGCCACAATGGAGGCCTATGTCTGCCCTCCCCTAAGCCAGGGTCACCACCACTCTGTGCCTGCCTCAGTGGTTTTGGGGGCCCTGACTGTCTGACACCTCCAGCTCCACCGGGCTGCGGTCCCCCCTCACCCTGCCTGCACAATGGTACCTGCACTGAGACCCCTGGGTTGGGCAACCCGGGCTTTCAATGCACCTGCCCTCCTGACTCTCCAGGGCCCCGGTGTCAAAGGCCAGGGGCAAGTGGGTGTGAGGGCCGAGGTGGTGATGGGACCTGCGATGCTGGCTGCAGTGGCCCAGGAGGAGACTGGGATGGAGGGGACTGTTCCCTGGGGGTCCCAGACCCCTGGAAGGGCTGTCCCCCGCATTCCCAGTGCTGGCTTCTGTTCCGGGACGGACGGTGTCACCCGCAGTGTGACTCTGAGGAGTGTCTCTTTGATGGCTACGACTGTGAAATCCCTCTAACCTGCAT
Seq A exon
GTGAGCCTGGGAATGAGGGGCAGGGGTGGGGGTGGGAGACATACATGCCCAAGCTGCAGAATGACCAGCATTGGACGCCAAGGAGTTTCCATGCTAAAAAAGACTCTAGGTTCCAACCCAGTGGAATGGAGTGACAGACACTGTGGGACATGGGCCTCAGCTTCTCTCCCCACTTTTACCATAGAATGCCTCCCTGGAAAACAACACCCCCCCCCCCCCCCGCCGCCCAAGGGAAAGGGTCTTGGATCCTCTTTCTGAGACAGGAGCAGGAGGAAAGGTTGGCCCCAGTCAATGGGGTCGGCAGACATCAGGGTGTTCGGCCACCATCCTGAACCCGAGTCGCAGAGGCCATGGAGTGGCCGTCATTCTCTATGAAGAAGGGTCAGATTTGGGAAGGGTGCTGACTCCATGCCTCCTTTGCCCACAG
Seq C2 exon
CCCAGCCTATGACCAGTACTGCCGAGATCACTTCCACAACGGGCACTGTGAGAAAGGCTGCAATAACGCTGAATGTGGCTGGGACGGGGGAGACTGCAGACCAGAAGGGGAAGACTCAGAGGGGAGGCCCTCCCTGGCCCTGCTGGTGGTGCTGAGGCCCCCAGCCCTGGATCAGCAGCTGCTTGCCCTGGCACGAGTGCTGTCCCTGACTCTGAGGGTCGGTCTCTGGGTGAGGAAGGACAGTGAAGGCAGGAACATGGTGTTCCCCTATCCTGGGACCCGGGCCAAAGAGGAGCTGAGTGGAGCTAGGGATTCCTCTTCATGGGAAAGACAAGCCCCTCCCACTCAGCCCCTGGGCAAGGAGACAGAGTCTCTTGGTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:21
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=0.256
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(14.7=2.9),PF0000822=EGF=WD(100=20.6),PF0006612=Notch=WD(100=22.9),PF0006612=Notch=WD(100=21.7),PF0006612=Notch=PU(12.8=2.9)
A:
NA
C2:
PF0006612=Notch=PD(84.6=25.6),PF068168=NOD=WD(100=40.3),PF076847=NODP=PU(3.1=1.6)
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:
GCACAATGGTACCTGCACTGA
R:
TCGGCAGTACTGGTCATAGGC
Band lengths:
358-785
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