MmuINT0074019 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25298186-25298535:-
Coord C1 exon
chr2:25298394-25298535
Coord A exon
chr2:25298314-25298393
Coord C2 exon
chr2:25298186-25298313
Length
80 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
TATTCCCTAACTGCTCACAGCAC
3' ss Score
4.69
Exon sequences
Seq C1 exon
ATAGTGACAATCCACCAAGAACCCTTCGTGTATGTCAAGCCCACAATGAGTGATGGCACATGCAAAGAGGAGTTCACAGTCAATGGTGACCCTGTCAAGAAGGTGATCTGTACGGGGCCTAATGACACATCCCCAGGAAGCC
Seq A exon
GTGAGTACTAGGCAAAGTGTGGCAGGGCGAAGGGACTCCAAATCAGGAACCCACAGTTAATATTCCCTAACTGCTCACAG
Seq C2 exon
CACGTCACACAGTGCCCCAGTGCTGTTATGGCTTCTGCGTTGACCTGCTCATCAAGCTGGCACGGACCATGAATTTTACCTACGAGGTGCACCTTGTGGCAGATGGCAAGTTTGGCACACAGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.292 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF106134=Lig_chan-Glu_bd=PU(7.6=10.4)
A:
NA
C2:
PF106134=Lig_chan-Glu_bd=FE(63.6=100)
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:
TGGTGACCCTGTCAAGAAGGT
R:
TGTGTGCCAAACTTGCCATCT
Band lengths:
180-260
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