MmuINT0074002 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25297788-25298313:-
Coord C1 exon
chr2:25298186-25298313
Coord A exon
chr2:25297953-25298185
Coord C2 exon
chr2:25297788-25297952
Length
233 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGG
5' ss Score
8.17
3' ss Seq
CCGGTTCTGTCTCGTTGCAGGTA
3' ss Score
12.27
Exon sequences
Seq C1 exon
CACGTCACACAGTGCCCCAGTGCTGTTATGGCTTCTGCGTTGACCTGCTCATCAAGCTGGCACGGACCATGAATTTTACCTACGAGGTGCACCTTGTGGCAGATGGCAAGTTTGGCACACAGGAGCGG
Seq A exon
GTATGGAGTAAAGGGGCTAATGGGAGAGTCCTGTGAACTGAGAGGGCAAAGTCTATGGGCTGGGTGGAGCCTTTTTAGCGGGGTCCTGGTGGTTGGGCTGGGCTTTAGATGTTAGGTAGACGTGGAGCAGGAGACAAACTCCCCATGTGCTAAGCCTACTATGGTCCATGAGTTCTTGTTCAAGGAGTTGTAATCATTCCATCTGCAGCCCCACCGGTTCTGTCTCGTTGCAG
Seq C2 exon
GTAAACAACAGCAACAAAAAGGAGTGGAACGGAATGATGGGAGAGCTGCTCAGTGGTCAAGCAGACATGATCGTGGCTCCACTGACCATTAACAATGAGCGTGCGCAGTACATAGAGTTCTCCAAGCCCTTCAAGTACCAGGGCCTGACCATTCTGGTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF106134=Lig_chan-Glu_bd=FE(63.6=100)
A:
NA
C2:
PF106134=Lig_chan-Glu_bd=PD(25.8=30.9)
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:
CACGTCACACAGTGCCCC
R:
CAGAATGGTCAGGCCCTGGTA
Band lengths:
284-517
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