MmuINT0109806 @ mm9
Intron Retention
Gene
ENSMUSG00000038146 | Notch3
Description
Notch gene homolog 3 (Drosophila) [Source:MGI Symbol;Acc:MGI:99460]
Coordinates
chr17:32281647-32283536:-
Coord C1 exon
chr17:32283352-32283536
Coord A exon
chr17:32281780-32283351
Coord C2 exon
chr17:32281647-32281779
Length
1572 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CCTTTCTTGCCTCAATACAGTGT
3' ss Score
6.71
Exon sequences
Seq C1 exon
GGGTGAGGTTGGAGCAGCTGTGTCAGGAAGGTGGAAAGTGCATAGACAAGGGCCGCTCCCACTACTGTGTGTGTCCAGAGGGCCGTACGGGTAGTCACTGTGAACACGAGGTGGATCCCTGCACGGCCCAGCCTTGCCAGCACGGGGGCACTTGCCGTGGTTACATGGGGGGCTATGTGTGTGAG
Seq A exon
GTAAGTGCGTCTCAGGGAGAGGGAAGAGAAGTCAGTCATGCTTGCCTGTGTTTCTGTGTCCTGGTGTGGGTCCTTCCCCTCCCCCGTCGGTGGGAGAGCAGGGATGTTTCATGTGTAGTAGGTAAGCACTCTGTATCACTCAGCTTCATCCAGAGTCAGCATGGCTGCTATAGAATTTTTTTATTTTATTTTATTTTTTTTTTTTTTTGGTTAGATTTTTGAGACATGGTCTCGTTATGAAGCTCTGGCTGTCCTGGAATTTGCTATGTAGTCCAAGCTGGCTTCCAAGTCACAGCAATCCTTCTGCCTCTGGCTCTATATGAGTGCTAGATAACAGTCATGCGCCATAATACTTGTCTGCGTGTCTTTTCTTTCCTCCTTTTCTTTATCTTTTCCTTTCCCTTCTTTCCTTCTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTATTTTGAGACAGAGTCTCACTATGTAGCTCTGGTGGGCTTAAACTATTAGAGATCTACCTACCTCAGCCTCGTGGGTGCTAGGATTAAAGGAATGAGCAACCAGGCCTGGCCTAGCAGTCCTTTTATGGGTATATGTCTGTGTGTGTGTGTGCACAGGAGTGTAAATGCAGAGGTCAGGGGCAGACATCAGGTGTCCCCTCTATCACTGTACTTTGTTCGCCTGCGGTTCTCTCACTGAACCTCAAGTTAGGCTGTAGATGGTGAGCCCCAGTGATCCTCCTGCCTCCCCCACCCCACACCTGGGTGACACACATAGAAGACCACACCTAGCTTTTTAAGTAGGTACTGAGGATTTGAACTCAAATCTTCACGTGTGTGCAGCAAGCGCTCTTACCCACTGAACCATCTCTGCAGCTCCTTAACCCTCATGCACTTGTGGATGGACTTGGGGCATGTGAGTTTCTGTCTCCAGTTCTGTGTCTCTCTCTGGGTATGAGTGACTTACCATTGTGTCTGGACATGTGGTCTGGGGTACCTGGGTATTTTTCCTGCGTGTTCTCATCAGCCTATCTCCCTCTGTACTGAGTGTGCTGGTGGCCTTCCCAGTCTCACCCTGACCAATAGCAACTTGAGGGAGGAGAGGATTTACTTCAGCTTACAGGTTACTGTCCATCATTGAGGGAGGCTGTGAAAGAAGCCCAAGGCAGGGAACCATCGTCCAGAACTGAAGCAGAGACCATAGAATTGTGTTGCTTTCCCGGAGCGGTCTGGGTCTTCCCACATCAATCAGCACTCAAGAAAATGCCCCCACAGACATGCTATAGGCCAATCTGAAGGAGGCAGTTTCTCAAGCAAGATTCCCTCTTCCCAGATAGGTCTAGGTTTGGTTCAAGTTCATGCACACACACAGATAACAAGTGTGGGCACAGTGTGTTTCCTTGTACTGGGTAAGTCTGCCCCCTACACTGGCTTTGTGTTGGATGTCTATGTGTGTCCTTTTGTGGTGAGATTCTGTGTGCTCACAGGTATGCCGAGGCACGTCTGTGTCCCTCGGGGCTGAGTGAATTCCTTTCTTGCCTCAATACAG
Seq C2 exon
TGTCCAGCTGGCTATGCTGGTGACAGTTGTGAGGATAATATAGATGAGTGTGCTTCCCAGCCCTGCCAGAACGGAGGCTCCTGTATCGATCTTGTGGCCCGCTATCTCTGTTCCTGTCCCCCTGGCACACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038146-Notch3:NM_008716:20
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=WD(100=48.4),PF0000822=EGF=PU(67.7=33.9)
A:
NA
C2:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(82.4=62.2)
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:
GGGTGAGGTTGGAGCAGCT
R:
CCAGTGTGCCAGGGGGAC
Band lengths:
318-1890
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: