MmuINT0109748 @ mm9
Intron Retention
Gene
ENSMUSG00000026923 | Notch1
Description
Notch gene homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:97363]
Coordinates
chr2:26320583-26321086:-
Coord C1 exon
chr2:26320870-26321086
Coord A exon
chr2:26320671-26320869
Coord C2 exon
chr2:26320583-26320670
Length
199 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTCCCTACCCCCATACCCAGGCC
3' ss Score
6.33
Exon sequences
Seq C1 exon
GTGAGCCGGTGGAGCCTCCGCTGCCCTCGCAGCTGCACCTCATGTACGTGGCAGCGGCCGCCTTCGTGCTCCTGTTCTTTGTGGGCTGTGGGGTGCTGCTGTCCCGCAAGCGCCGGCGGCAGCATGGCCAGCTCTGGTTCCCTGAGGGTTTCAAAGTGTCAGAGGCCAGCAAGAAGAAGCGGAGAGAGCCCCTCGGCGAGGACTCAGTCGGCCTCAA
Seq A exon
GTGAGTGGACACTGCTCCCACTGTGTGTGGGTGAGTGAGTGGCAGGGTTGGTGGGGGTGCTTAGCTCCAGAAGGCCCATGGGCCCATCCATCCCTGTCCGTTACCCTAAGCCCTTCTGCATGTAGAGGATGCCCATATGAGCTGTGGCTTCAGGGCATCTCCTGGAGTACCTGCTCAGTCTCCCTACCCCCATACCCAG
Seq C2 exon
GCCCCTGAAGAATGCCTCAGATGGTGCTCTGATGGACGACAATCAGAACGAGTGGGGAGACGAAGACCTGGAGACCAAGAAGTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026923-Notch1:NM_008714:28
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.733
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(14.3=12.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGCACCTCATGTACGTG
R:
CCCCACTCGTTCTGATTGTCG
Band lengths:
245-444
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: