MmuINT0109807 @ mm9
Intron Retention
Gene
ENSMUSG00000038146 | Notch3
Description
Notch gene homolog 3 (Drosophila) [Source:MGI Symbol;Acc:MGI:99460]
Coordinates
chr17:32281312-32281779:-
Coord C1 exon
chr17:32281647-32281779
Coord A exon
chr17:32281570-32281646
Coord C2 exon
chr17:32281312-32281569
Length
77 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
ACCATGCTCCTATACCCTAGGAG
3' ss Score
7.96
Exon sequences
Seq C1 exon
TGTCCAGCTGGCTATGCTGGTGACAGTTGTGAGGATAATATAGATGAGTGTGCTTCCCAGCCCTGCCAGAACGGAGGCTCCTGTATCGATCTTGTGGCCCGCTATCTCTGTTCCTGTCCCCCTGGCACACTGG
Seq A exon
GTATGTTAAGGCCAGGGTTGGGGGCAGGATAAGAGGATGAGTTTCTAGCCTCCACTGACCATGCTCCTATACCCTAG
Seq C2 exon
GAGTTCTCTGTGAGATCAATGAGGACGACTGTGACCTAGGCCCATCCTTGGACTCAGGCGTTCAGTGCCTACACAATGGCACCTGTGTGGACCTGGTGGGTGGCTTCCGCTGTAACTGTCCCCCAGGATACACAGGTCTGCACTGTGAGGCAGACATCAATGAGTGTCGCCCGGGTGCCTGCCATGCAGCGCATACTCGGGACTGCCTACAAGATCCAGGTGGGCATTTCCGCTGCGTCTGCCATCCTGGCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038146-Notch3:NM_008716:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(82.4=62.2)
A:
NA
C2:
PF0000822=EGF=PD(14.7=5.7),PF0000822=EGF=WD(100=39.1),PF0764510=EGF_CA=PU(83.3=40.2)
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:
ATCTTGTGGCCCGCTATCTCT
R:
CTGTGTATCCTGGGGGACAGT
Band lengths:
180-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: