MmuINT0109840 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34583350-34584004:+
Coord C1 exon
chr17:34583350-34583733
Coord A exon
chr17:34583734-34583828
Coord C2 exon
chr17:34583829-34584004
Length
95 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
GGGCCTTTCCCTTCCCACAGGTT
3' ss Score
11.89
Exon sequences
Seq C1 exon
CCCAGCCTATGACCAGTACTGCCGAGATCACTTCCACAACGGGCACTGTGAGAAAGGCTGCAATAACGCTGAATGTGGCTGGGACGGGGGAGACTGCAGACCAGAAGGGGAAGACTCAGAGGGGAGGCCCTCCCTGGCCCTGCTGGTGGTGCTGAGGCCCCCAGCCCTGGATCAGCAGCTGCTTGCCCTGGCACGAGTGCTGTCCCTGACTCTGAGGGTCGGTCTCTGGGTGAGGAAGGACAGTGAAGGCAGGAACATGGTGTTCCCCTATCCTGGGACCCGGGCCAAAGAGGAGCTGAGTGGAGCTAGGGATTCCTCTTCATGGGAAAGACAAGCCCCTCCCACTCAGCCCCTGGGCAAGGAGACAGAGTCTCTTGGTGCAGG
Seq A exon
GTAAGCAAGACATGGAGGGGTGGGGGCAAATAACAGTTCTTTGGATGCAGCGGGGACGAGACAGAGGTCCCTGAAGGGCCTTTCCCTTCCCACAG
Seq C2 exon
GTTTGTGGTAGTGATGGGAGTGGATCTGTCCCGCTGTGGTCCGGAACATCCTGCGTCCCGCTGCCCCTGGGACTCTGGACTCCTGCTGCGCTTCCTTGCAGCAATGGCAGCAGTGGGAGCTCTGGAGCCCCTGCTGCCTGGACCCTTGCTGGCGGCTCACCCTCAAGCAGGGACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.126
Domain overlap (PFAM):
C1:
PF0006612=Notch=PD(84.6=25.6),PF068168=NOD=WD(100=40.3),PF076847=NODP=PU(3.1=1.6)
A:
NA
C2:
PF076847=NODP=FE(92.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGAAGGACAGTGAAGGCA
R:
TCCACTCCCATCACTACCACA
Band lengths:
178-273
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