MmuINT0074005 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25297148-25297482:-
Coord C1 exon
chr2:25297370-25297482
Coord A exon
chr2:25297297-25297369
Coord C2 exon
chr2:25297148-25297296
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCCAAGTCTCTGCCCACAGGTG
3' ss Score
8.62
Exon sequences
Seq C1 exon
TCCCTTTGGCCGATTTAAGGTGAACAGCGAGGAGGAGGAGGAGGATGCACTGACCCTGTCCTCTGCCATGTGGTTTTCCTGGGGCGTCCTGCTCAACTCTGGCATTGGGGAAG
Seq A exon
GTGAGGTTAAGCCCAGGGCCTGGATGGCTGCATTCCCAGCTTTCCAGGAACTGACCCAAGTCTCTGCCCACAG
Seq C2 exon
GTGCCCCCCGGAGTTTCTCTGCTCGTATCCTAGGCATGGTGTGGGCTGGTTTTGCCATGATCATCGTGGCTTCCTACACTGCCAACCTGGCAGCCTTCCTGGTGCTGGATAGGCCTGAGGAGCGCATCACAGGCATCAATGACCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(11.1=100),PF0006021=Lig_chan=FE(14.3=100)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(14.3=100),PF0006021=Lig_chan=FE(18.4=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:
GTCCTGCTCAACTCTGGCATT
R:
CTGGGGTCATTGATGCCTGTG
Band lengths:
176-249
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