MmuINT0109847 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34587117-34588503:+
Coord C1 exon
chr17:34587117-34587214
Coord A exon
chr17:34587215-34587373
Coord C2 exon
chr17:34587374-34588503
Length
159 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CTTTCGGGTCTCCTCCGCAGGAA
3' ss Score
10.69
Exon sequences
Seq C1 exon
GAAAAACTGCACTGCACTGGGCCGCTGCTGTGAACAACGCCCGAGCCGCCCGCTCTCTCCTCCAGGCTGGAGCGGATAAAGATGCCCAGGACAGTAGG
Seq A exon
GTGAGCCACGTCGCAGCCCCCACTGAACAAGCCAAAAGCAGGGGAATCCAACAGGCTCCAAGGGGGCGGGGCCCAGTGTCTGACGGGAGGGCACAGACTCCCGGGGGGCGGGGACTCCCTAACAGTCCCTGCCCCCGGGCTTTCGGGTCTCCTCCGCAG
Seq C2 exon
GAACAGACGCCGCTTTTCCTGGCAGCGCGCGAAGGAGCCGTGGAGGTGGCGCAGCTGTTGCTGGAGCTCGGGGCGGCCCGGGGACTGCGAGACCAGGCCGGGCTGGCCCCAGGAGATGTGGCCCGCCAGCGCAGTCACTGGGACCTGCTAACGCTGCTGGAAGGGGCTGGACCGACTACGCAGGAGGCCCGTGCGCACGCACGCACCACGCCGGGGGGCGGGGCCGCGCCGCGCTGCCGGACGCTGTCTGCGGGAGCGCGCCCGCGCGGGGGCGGAGCCTGTCTGCAGGCTCGCACTTGGTCGGTGGACTTGGGAGCGCGCGGAGGGAAGGTGTATGCTCGCTGCCGGAGCCGATCTGGAAGCTGCGGAGGCCCCACCACGCGCGGCCGCAGGTTCTCCGCGGGCTCCCGTGGACGACGCGGGGCTAGGGCATCACAGGATGACTGGCCTCGCGACTGGGTGGCCCTGGAAGCCTGCGGCTCCGCCTGCAGTGCGCCGATCCCGCCTCCCAGCCTGACCCCGTCCCCAGAACGTGGATCCCCTCAAGTTGCCTGGGGTCTTCCAGTTCACCAAGAGATTCCCTTAAACTCGGTTGTAAGAAATCTGAACTAGGCAGCTGCGTGGAAGGAAGGAAGCGACACGTACGAGTCTGGAAGACTCCGGACTTTTAAGGCCAAAATAACCGTTAAGCTCACTTGTCTCCCCCATAGAGTATGCACAGCAATGGGAAGAGGGTTTAGGATGTCCGGTTGAGATAGACCGTGATTTTCCTGGAAAATAGGGCAGCTTCAAGAGGACAAAGTTGATTTCGAGAATCCCTAAACTCTGGAACCAAGAACTGTGGGCGAATTGGGTGTAAAATGTTTCTTGTGTATGGTTTCCCAAAAGGAGCCTCTGCTATCTACTGCCCACAAGTAGCTGGCAACTATTTATTAAGCACCTACGATGTGCCGGGTGTTGTGTAGATGAACAGTAAGTAACCAGTGGCCCATCCAGCTGATGACTCCTTGCCCTCTCTCTGCCTCCCCACAAGGACACTGGTGCAGGGATGAGGCCATGTTCTCCAGTCACTGCTATCTCCGAGAACCCCAAACTCATGGATAATAAAGCTAATTTGAAGTGCTACTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.424 A=NA C2=0.443
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.4=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.3=14.7)
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:
GAAAAACTGCACTGCACTGGG
R:
GTTAGCAGGTCCCAGTGACTG
Band lengths:
250-409
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