MmuINT0109841 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34583829-34584631:+
Coord C1 exon
chr17:34583829-34584004
Coord A exon
chr17:34584005-34584411
Coord C2 exon
chr17:34584412-34584631
Length
407 bp
Sequences
Splice sites
5' ss Seq
CCAGTAGGT
5' ss Score
5.41
3' ss Seq
GACTGTCTCTCTCTTACCAGGGC
3' ss Score
11.28
Exon sequences
Seq C1 exon
GTTTGTGGTAGTGATGGGAGTGGATCTGTCCCGCTGTGGTCCGGAACATCCTGCGTCCCGCTGCCCCTGGGACTCTGGACTCCTGCTGCGCTTCCTTGCAGCAATGGCAGCAGTGGGAGCTCTGGAGCCCCTGCTGCCTGGACCCTTGCTGGCGGCTCACCCTCAAGCAGGGACCA
Seq A exon
GTAGGTGATCCCCTACCATCGCCCTTGACCTTAGCTCATATCCTCGCTGGGAGAGATAGAACCAAAAACCAAAATGTCTGTGTGGGGAACTTGGCCTAACATCTCTTCTTTGGAATGACTCTCCCCCTGTCCCATCTATTCAGTGGTCTCCCTTCCTGTTTCCCTGAGAACTTTGTACTAACCTCTGGCATAGCTCTACAACCAACCTTGGGTTACCACTATATGATAGGAAACTATCATATTATAACATATCCTATGAGCTCTCTTCGAAGCATGTTAACCATTAACATATTTAACTACAGGAGACAGGAGGAAACTGAGGCAGGCTACTCCACTAACCCGAGCTACTCCACTGGCCCATTCTTAACAAGAATGGGCCCCTTTTGTGACTGTCTCTCTCTTACCAG
Seq C2 exon
GGCCCTCTGCCAACCAGCTTCCCTGGCCCATTCTATGTTCACCAGTGGTTGGGGTGCTTCTCCTGGCCCTTGGGGCCCTTCTCGTCCTCCAGCTCATTCGGCGACGGCGACGAGAACATGGGGCCCTGTGGCTGCCCCCTGGTTTCATTCGAAGGCCTCAGACACAGCAGGCACCCCACCGGCGGAGGCCCCCACTGGGCGAGGACAACATTGGTCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.126 A=NA C2=0.297
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(92.2=100)
A:
NA
C2:
PF076847=NODP=PD(3.1=2.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGTAGTGATGGGAGTGGA
R:
CTGCTGTGTCTGAGGCCTTC
Band lengths:
343-750
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