MmuINT0109817 @ mm9
Intron Retention
Gene
ENSMUSG00000038146 | Notch3
Description
Notch gene homolog 3 (Drosophila) [Source:MGI Symbol;Acc:MGI:99460]
Coordinates
chr17:32269147-32270637:-
Coord C1 exon
chr17:32270333-32270637
Coord A exon
chr17:32269295-32270332
Coord C2 exon
chr17:32269147-32269294
Length
1038 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ATGGCTTTTGTCGTCGTTAGATT
3' ss Score
6.93
Exon sequences
Seq C1 exon
ATGGCTTCACCCCACTTATGCTGGCCTCCTTCTGTGGGGGAGCCCTGGAGCCGATGCCAGCTGAGGAGGATGAGGCGGATGACACATCAGCCAGCATTATCTCAGATCTGATCTGTCAAGGGGCCCAGCTCGGGGCACGGACTGACCGCACTGGCGAGACCGCCCTGCATTTGGCTGCCCGCTATGCTAGAGCGGATGCAGCCAAGCGTCTCCTGGATGCTGGGGCGGACACCAACGCCCAGGATCATTCGGGCCGCACCCCCCTGCACACCGCAGTGACAGCTGATGCCCAGGGTGTCTTCCAG
Seq A exon
GTGAGACAGGCCTGTCTCTTCAGACTGCAGAGCTGCTGGGAGGGGATCAGACACACCTAGATTGGAGCCCCGGTCTGTCTTGCAAGGCTTTTGTCATTTGGAAATAGGAATAGGTAGTATCTCACCTAGATTTCCCGCCGGCCCCCCCCCCCCCCCCCCAGGACAGGGTTTCTGTATAGTCCTGGCTGTGCTAGAACTCACTCCAATAAACCAGGCTGGCCTCGAACTCAGAAAGATCCACTTGCCTCTGCCTCTGGAGTGCTAGGATTAAAGGCATGCACCACTAACACTGGATAGAATTTTTTTCTTTTTTAATTTTATTAATATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGAACTTGTTGCAGATGGTTGTAAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCTGGATAGAATTTTTTAAAAAGTATCATTAAAATTACATTTATTTGGTGTGTGTGTGTATGTTATGCTGATTGGTTTGTGTTTGTTTGTGTGGCATATGTGTACCTGGGTATGTACATTGCCCAGCTTGCTGAAGCTAGAGGAGGCTGTTGATTGTTCTGCTCTATCGTGCTCCACCCAATCTTTTGAGACAGAGCCCATCAGCGAGCCTGGAGTTGAGCTGGTGTCCAGAAAGCTCTCTTGATCCTCTTGTCTTCTTCCCCACAGCCCTGGGGCACACATGACCAAGACTGGCTTTTTAGGTGGACTTTGGGCTCTGACGTCAGGTGCTTGTCCCCTGAGCCATCTCCCTGTCCTTCCATATCATACTGTTACTTAAATCCATTTTGAATGAGCATATTTTTTGATTTATAATGTGCTTAGCAGGAATAGCACCTCATTTTAAGTCAGGAGATATCTGTAGCTCCTGGGTTCCAAAGCTGTGGCATTTGGGGTTCAGGGTGTGGTATACTCCTCCCTTGGCATAATGTCCTGCCATGGCTTTTGTCGTCGTTAG
Seq C2 exon
ATTCTCATCAGGAACCGCTCCACTGACCTGGATGCCCGAATGGCAGATGGCTCTACTGCACTGATCCTGGCAGCCCGCCTGGCAGTGGAGGGCATGGTGGAAGAGCTCATCGCCAGCCATGCCGATGTCAATGCAGTGGATGAGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038146-Notch3:NM_008716:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(83.7=75.5)
A:
NA
C2:
PF127962=Ank_2=PD(14.1=26.0),PF127962=Ank_2=PU(30.9=58.0)
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:
GGATGAGGCGGATGACACATC
R:
GATGAGCTCTTCCACCATGCC
Band lengths:
349-1387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: