MmuINT0074003 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25297596-25297952:-
Coord C1 exon
chr2:25297788-25297952
Coord A exon
chr2:25297715-25297787
Coord C2 exon
chr2:25297596-25297714
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
CGACCATTGGTCACCTGCAGGAG
3' ss Score
7.64
Exon sequences
Seq C1 exon
GTAAACAACAGCAACAAAAAGGAGTGGAACGGAATGATGGGAGAGCTGCTCAGTGGTCAAGCAGACATGATCGTGGCTCCACTGACCATTAACAATGAGCGTGCGCAGTACATAGAGTTCTCCAAGCCCTTCAAGTACCAGGGCCTGACCATTCTGGTCAAGAAG
Seq A exon
GTAGGCAGGGACCAGGTGGGGATGGGACGGGGCATGGAAGGCCCAGGTGACACCGACCATTGGTCACCTGCAG
Seq C2 exon
GAGATCCCTCGGAGCACACTGGACTCATTCATGCAGCCCTTTCAGAGCACACTGTGGCTGCTGGTGGGGCTGTCAGTTCATGTGGTGGCCGTGATGCTGTACCTGCTGGACCGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF106134=Lig_chan-Glu_bd=PD(25.8=30.9)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(11.4=100),PF0006021=Lig_chan=PU(9.4=62.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTGCGCAGTACATAGAGTT
R:
GTCCAGCAGGTACAGCATCAC
Band lengths:
178-251
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