MmuINT0109844 @ mm10
Intron Retention
Gene
ENSMUSG00000015468 | Notch4
Description
notch 4 [Source:MGI Symbol;Acc:MGI:107471]
Coordinates
chr17:34584991-34586209:+
Coord C1 exon
chr17:34584991-34585129
Coord A exon
chr17:34585130-34585904
Coord C2 exon
chr17:34585905-34586209
Length
775 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAC
5' ss Score
2.74
3' ss Seq
GTACTCATTCTCATCCGCAGATG
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCTGAAGAAACAGCCTCAGCCTCCAGGTGCCAGCTTTGGCCGCTCAACAGCGGCTGTGGAGAGCTCCCCCAGGCAGCCATGCTGACCCCTCCTCAGGAGTGTGAATCGGAGGTTCTGGATGTGGACACCTGTGGACCTG
Seq A exon
GTACACAACCAACCTAGACCAAGTGGAGGTGGGGGGGGGCGCGGCGGGGGGGATCCTACTCTTGACCCTTTTAGAAACAAAGGCCATTAGTATCCAAACTAGAGCCTTCAGAGAGAGTGGTAGCTCTCAGAGAAAGGGCCCCAGAGAGCGCAGCACCATCTAGGGACGTGCCAGGAATACAAACTCAGACTTGGCAAGCTGAGGTACAGAGCAATGGGAACAGCCCTCTAGATCAGGCCAACTCAGGCTCATGCCTCAGACGCTCTGAGAACTAAAGCCTCCCTGATGAGAAAACTGGGCCTCAGAGAGGTTGATGAAGACACTAAATCTAGTCGATCGGTGGTGGTGCACACCTTTGATTCAGACACTCAGGAGGCAGATGTAGGCAGATCTCCGAGTTCGAAGCCAGCATCGTCTAGAGATCAAGTCCCAGGACAGGCAGCACTACACAGAAAACCCCGTCTTTAAACAAAACAAAACACTAAATCAAGAACCAACACTTGACTGGCAACAGTGGCACACACCTTTAATCCTATCAGGAAGGTTTTAGTCCTAGCAGGAAAGCAGCAGAGGCAGGTGGATCTCTATGAGTTCTAGACCACCCTGGTGAGTTCCAGGACAGTCAGAGCTATATAGTGAGAATCTGTCGCAAGCACCCCTTTACTCCATCACCCTAAAAAGGCAGAGCTTGGCTAAGATGGCTGCAATTCTCCCAGGGGCATGCTATCATTCTCTTATCCCTTTGATCGGCCCTAGTACTCATTCTCATCCGCAG
Seq C2 exon
ATGGGGTGACACCCCTGATGTCAGCCGTCTTCTGTGGGGGAGTGCAGTCCACGACTGGGGCTAGTCCACAGAGACTGGGGCTAGGAAATCTGGAACCCTGGGAACCACTGCTGGATAGAGGGGCCTGCCCCCAGGCTCACACTGTGGGCACTGGAGAGACGCCTCTGCACCTAGCTGCCAGATTCTCTCGGCCAACCGCTGCCCGCCGCCTCCTTGAGGCTGGAGCCAACCCCAACCAGCCAGACCGCGCTGGGCGCACCCCACTTCACACTGCTGTGGCTGCCGACGCTCGGGAGGTTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015468:ENSMUST00000015612:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.617 A=NA C2=0.608
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127962=Ank_2=PU(82.1=76.5)
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:
TCAGGAGTGTGAATCGGAGGT
R:
GCAAACCTCCCGAGCGTC
Band lengths:
349-1124
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