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GRIN3A Gene(Protein Coding)

Glutamate Ionotropic Receptor NMDA Type Subunit 3A

GCID:
GC09M101569
GIFtS:
46
Genes Participants
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Aliases for GRIN3A Gene

Aliases for GRIN3A Gene

  • Glutamate Ionotropic Receptor NMDA Type Subunit 3A 2 3 5
  • Glutamate Receptor, Ionotropic, N-Methyl-D-Aspartate 3A 2 3
  • N-Methyl-D-Aspartate Receptor Subtype 3A 3 4
  • NMDAR-L 3 4
  • NMDAR3A 3 4
  • GluN3A 3 4
  • NR3A 3 4
  • Glutamate Receptor Ionotropic, NMDA 3A 3
  • Glutamate [NMDA] Receptor Subunit 3A 3
  • KIAA1973 4

External Ids for GRIN3A Gene

Previous GeneCards Identifiers for GRIN3A Gene

  • GC09M095131
  • GC09M096075
  • GC09M097789
  • GC09M099711
  • GC09M101411
  • GC09M103371
  • GC09M104331
  • GC09M073932

Summaries for GRIN3A Gene

Entrez Gene Summary for GRIN3A Gene

  • This gene encodes a subunit of the N-methyl-D-aspartate (NMDA) receptors, which belong to the superfamily of glutamate-regulated ion channels, and function in physiological and pathological processes in the central nervous system. This subunit shows greater than 90% identity to the corresponding subunit in rat. Studies in the knockout mouse deficient in this subunit suggest that this gene may be involved in the development of synaptic elements by modulating NMDA receptor activity. [provided by RefSeq, Jul 2008]

GeneCards Summary for GRIN3A Gene

GRIN3A (Glutamate Ionotropic Receptor NMDA Type Subunit 3A) is a Protein Coding gene. Diseases associated with GRIN3A include Lingual-Facial-Buccal Dyskinesia. Among its related pathways are Circadian entrainment and Amyotrophic lateral sclerosis (ALS). Gene Ontology (GO) annotations related to this gene include identical protein binding and protein phosphatase 2A binding. An important paralog of this gene is GRIN3B.

UniProtKB/Swiss-Prot for GRIN3A Gene

  • NMDA receptor subtype of glutamate-gated ion channels with reduced single-channel conductance, low calcium permeability and low voltage-dependent sensitivity to magnesium. Mediated by glycine. May play a role in the development of dendritic spines. May play a role in PPP2CB-NMDAR mediated signaling mechanism (By similarity).

Tocris Summary for GRIN3A Gene

  • NMDA receptors are members of the ionotropic class of glutamate receptors, which also includes Kainate and AMPA receptors. NMDA receptors consist of NR1 subunits combined with NR2 (A-D) or NR3 (A-B) subunits. The ligand-gated channel is permeable to cations.

Gene Wiki entry for GRIN3A Gene

Additional gene information for GRIN3A Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GRIN3A Gene

Genomics for GRIN3A Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for GRIN3A Gene

Promoters and enhancers for GRIN3A Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH09I101738 Promoter 0.8 EPDnew 550.8 -0.1 -87 0.1 ZNF335 CTCF SCRT2 RAD21 EZH2 GRIN3A MTND3P4
GH09I101739 Promoter 0.8 EPDnew 550.8 +0.4 397 0.1 CTCF ZNF335 SIN3A CTBP2 REST RAD21 EZH2 GRIN3A GC09P101627
GH09I101704 Enhancer 0.6 Ensembl ENCODE 11.3 +33.2 33231 0.9 CTCF RAD21 GRIN3A GC09P101627
GH09I101716 Enhancer 0.3 ENCODE 12.7 +21.7 21680 1.3 POLR2A GRIN3A TMEM246-AS1 GC09P101627
GH09I101673 Enhancer 0.3 ENCODE 10.5 +64.7 64705 1.4 SPI1 GRIN3A PPP3R2 TMEM246-AS1 GC09P101627
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around GRIN3A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the GRIN3A gene promoter:

Genomic Locations for GRIN3A Gene

Genomic Locations for GRIN3A Gene
chr9:101,569,352-101,738,580
(GRCh38/hg38)
Size:
169,229 bases
Orientation:
Minus strand
chr9:104,331,634-104,500,862
(GRCh37/hg19)

Genomic View for GRIN3A Gene

Genes around GRIN3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GRIN3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GRIN3A Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for GRIN3A Gene

Proteins for GRIN3A Gene

Products:

  1. Antibody
  2. Protein
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  • Protein details for GRIN3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TCU5-NMD3A_HUMAN
    Recommended name:
    Glutamate receptor ionotropic, NMDA 3A
    Protein Accession:
    Q8TCU5
    Secondary Accessions:
    • B3DLF9
    • Q5VTR3
    • Q8TF29
    • Q8WXI6

    Protein attributes for GRIN3A Gene

    Size:
    1115 amino acids
    Molecular mass:
    125465 Da
    Quaternary structure:
    • Forms heteromeric channel of a zeta subunit (GRIN1), a epsilon subunit (GRIN2A, GRIN2B, GRIN2C or GRIN2D) and a third subunit (GRIN3A or GRIN3B). Does not form functional homomeric channels. Found in a complex with GRIN1, GRIN2A or GRIN2B and PPP2CB. Probably interacts with PPP2CB. No complex with PPP2CB is detected when NMDARs are stimulated by NMDA (By similarity).
    SequenceCaution:
    • Sequence=BAB85559.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for GRIN3A Gene

Post-translational modifications for GRIN3A Gene

  • N-glycosylated.
  • Glycosylation at posLast=145145, isoforms=264, isoforms=275, posLast=285285, isoforms=296, isoforms=426, isoforms=439, isoforms=549, posLast=565565, and isoforms=886

Other Protein References for GRIN3A Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for GRIN3A Gene

Domains & Families for GRIN3A Gene

Gene Families for GRIN3A Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • FDA approved drug targets
  • Predicted membrane proteins

Protein Domains for GRIN3A Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for GRIN3A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8TCU5

UniProtKB/Swiss-Prot:

NMD3A_HUMAN :
  • Belongs to the glutamate-gated ion channel (TC 1.A.10.1) family. NR3A/GRIN3A subfamily.
Family:
  • Belongs to the glutamate-gated ion channel (TC 1.A.10.1) family. NR3A/GRIN3A subfamily.
genes like me logo Genes that share domains with GRIN3A: view

Function for GRIN3A Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for GRIN3A Gene

UniProtKB/Swiss-Prot Function:
NMDA receptor subtype of glutamate-gated ion channels with reduced single-channel conductance, low calcium permeability and low voltage-dependent sensitivity to magnesium. Mediated by glycine. May play a role in the development of dendritic spines. May play a role in PPP2CB-NMDAR mediated signaling mechanism (By similarity).

Phenotypes From GWAS Catalog for GRIN3A Gene

Gene Ontology (GO) - Molecular Function for GRIN3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004970 ionotropic glutamate receptor activity IEA --
GO:0004972 contributes_to NMDA glutamate receptor activity IEA,ISS --
GO:0005216 ion channel activity IEA --
GO:0005234 extracellularly glutamate-gated ion channel activity IEA --
GO:0005262 calcium channel activity IEA --
genes like me logo Genes that share ontologies with GRIN3A: view
genes like me logo Genes that share phenotypes with GRIN3A: view

Animal Models for GRIN3A Gene

MGI Knock Outs for GRIN3A:

Animal Model Products

miRNA for GRIN3A Gene

miRTarBase miRNAs that target GRIN3A

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for GRIN3A Gene

Localization for GRIN3A Gene

Subcellular locations from UniProtKB/Swiss-Prot for GRIN3A Gene

Cell membrane; Multi-pass membrane protein. Cell junction, synapse, postsynaptic cell membrane. Cell junction, synapse, postsynaptic cell membrane, postsynaptic density. Note=Enriched in postsynaptic plasma membrane and postsynaptic densities. Requires the presence of GRIN1 to be targeted at the plasma membrane (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for GRIN3A gene
Compartment Confidence
plasma membrane 5
nucleus 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for GRIN3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0014069 postsynaptic density IEA --
GO:0016020 membrane IDA,IEA 17997397
GO:0016021 integral component of membrane NAS 11880201
GO:0017146 NMDA selective glutamate receptor complex IDA 17997397
genes like me logo Genes that share ontologies with GRIN3A: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for GRIN3A Gene

Pathways & Interactions for GRIN3A Gene

genes like me logo Genes that share pathways with GRIN3A: view

Pathways by source for GRIN3A Gene

Gene Ontology (GO) - Biological Process for GRIN3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0006811 ion transport IEA --
GO:0006816 calcium ion transport IEA,ISS --
GO:0016358 dendrite development IEA --
GO:0034220 ion transmembrane transport IEA --
genes like me logo Genes that share ontologies with GRIN3A: view

No data available for SIGNOR curated interactions for GRIN3A Gene

Drugs & Compounds for GRIN3A Gene

Products:

  1. Drug

(56) Drugs for GRIN3A Gene - From: DrugBank, PharmGKB, ApexBio, DGIdb, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Felbamate Approved Pharma Target, antagonist 4
Acamprosate Approved, Investigational Pharma Target, antagonist, agonist 39
Dextromethorphan Approved Pharma Target, antagonist, agonist 140
Memantine Approved, Investigational Pharma Channel blocker, Target, antagonist 185
Orphenadrine Approved Pharma Target, antagonist 9

(4) Additional Compounds for GRIN3A Gene - From: HMDB and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
trifluoroacetic acid
  • Acide trifluoroacetique
  • CF3COOH
  • Kyselina trifluoroctova
  • Perfluoroacetic acid
  • Trifluoracetic acid
 76-05-1

(5) Tocris Compounds for GRIN3A Gene

Compound Action Cas Number
cis-ACPD Potent NMDA agonist. Also group II mGluR agonist 477331-06-9
HU 211 NMDA receptor antagonist; also NF-kappaB inhibitor 112924-45-5
Ibotenic acid Non-selective NMDA agonist 2552-55-8
Ifenprodil hemitartrate Non-competitive NMDA antagonist. Also sigma ligand 23210-56-2
L-Cysteinesulfinic acid NMDA and mGlu agonist 1115-65-7

(11) ApexBio Compounds for GRIN3A Gene

Compound Action Cas Number
(-)-Huperzine A NMDA receptor antagonist/AChE inhibitor 102518-79-6
(-)-MK 801 NMDA antagonist,potent and selective 121917-57-5
(+)-MK 801 Potent NMDA antagonist 70449-94-4
(+)-MK 801 Maleate Potent NMDA antagonist 77086-22-7
Dextromethorphan hydrobromide inhibitor of NMDA-induced currents and voltage-operated inward currents 125-69-9
Felbamate 25451-15-4
Flupirtine maleate 75507-68-5
Ifenprodil Tartrate NMDA receptor antagonist 23210-58-4
Memantine hydrochloride NMDA receptor antagonist 41100-52-1
MK-801 (Dizocilpine) 77086-21-6
NMDA (N-Methyl-D-aspartic acid) NMDA receptor agonist 6384-92-5
genes like me logo Genes that share compounds with GRIN3A: view

Drug Products

Transcripts for GRIN3A Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for GRIN3A Gene

(2) REFSEQ mRNAs :
(11) Additional mRNA sequences :
(20) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for GRIN3A Gene

Glutamate receptor, ionotropic, N-methyl-D-aspartate 3A:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for GRIN3A Gene

No ASD Table

Relevant External Links for GRIN3A Gene

GeneLoc Exon Structure for
GRIN3A
ECgene alternative splicing isoforms for
GRIN3A

Expression for GRIN3A Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GRIN3A Gene

mRNA expression in normal human tissues for GRIN3A Gene
mRNA expression by BioGPS for GRIN3A GenemRNA expression by GTEx for GRIN3A Gene

mRNA differential expression in normal tissues according to GTEx for GRIN3A Gene

This gene is overexpressed in Brain - Anterior cingulate cortex (BA24) (x8.5), Brain - Hypothalamus (x5.3), Brain - Frontal Cortex (BA9) (x5.2), and Brain - Cortex (x4.7).

NURSA nuclear receptor signaling pathways regulating expression of GRIN3A Gene:

GRIN3A

SOURCE GeneReport for Unigene cluster for GRIN3A Gene:

Hs.654783

Evidence on tissue expression from TISSUES for GRIN3A Gene

  • Nervous system(4.5)
genes like me logo Genes that share expression patterns with GRIN3A: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GRIN3A Gene

Orthologs for GRIN3A Gene

This gene was present in the common ancestor of animals.

Orthologs for GRIN3A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia GRIN3A 33 34
  • 98.98 (n)
dog
(Canis familiaris)
 Mammalia GRIN3A 33 34
  • 92.94 (n)
cow
(Bos Taurus)
 Mammalia GRIN3A 34 33
  • 92.1 (n)
 OneToOne
mouse
(Mus musculus)
 Mammalia Grin3a 16 34 33
  • 89.21 (n)
rat
(Rattus norvegicus)
 Mammalia Grin3a 33
  • 88.76 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia GRIN3A 34
  • 86 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia GRIN3A 34
  • 82 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves GRIN3A 33 34
  • 77.21 (n)
lizard
(Anolis carolinensis)
 Reptilia GRIN3A 34
  • 79 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia grin3a 33
  • 70.72 (n)
zebrafish
(Danio rerio)
 Actinopterygii GRIN3A 34
  • 62 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta Nmdar2 34
  • 21 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea nmr-2 34
  • 23 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 34
  • 31 (a)
 OneToMany
Species where no ortholog for GRIN3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for GRIN3A Gene

ENSEMBL:
Gene Tree for GRIN3A (if available)
TreeFam:
Gene Tree for GRIN3A (if available)

Paralogs for GRIN3A Gene

Paralogs for GRIN3A Gene

(2) SIMAP similar genes for GRIN3A Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with GRIN3A: view

Variants for GRIN3A Gene

Sequence variations from dbSNP and Humsavar for GRIN3A Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000026283 -- 101,636,028(-) A/G intron_variant
rs1000027248 -- 101,591,544(-) C/A genic_downstream_transcript_variant, intron_variant
rs1000040816 -- 101,685,365(-) T/C intron_variant
rs1000044664 -- 101,595,713(-) G/T genic_downstream_transcript_variant, intron_variant
rs1000053068 -- 101,700,789(-) C/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for GRIN3A Gene

Variant ID Type Subtype PubMed ID
dgv12811n54 CNV loss 21841781
dgv12812n54 CNV loss 21841781
dgv266n6 CNV deletion 16902084
dgv4109n106 CNV deletion 24896259
dgv492e215 CNV deletion 23714750
esv1003325 CNV deletion 20482838
esv1035979 CNV deletion 17803354
esv1995711 CNV deletion 18987734
esv2606620 CNV deletion 19546169
esv2671974 CNV deletion 23128226
esv26854 CNV loss 19812545
esv2738843 CNV deletion 23290073
esv3164 CNV loss 18987735
esv3266718 CNV deletion 24192839
esv3545211 CNV deletion 23714750
esv3621256 CNV loss 21293372
esv3891696 CNV loss 25118596
esv5546 CNV loss 19470904
esv991727 CNV deletion 20482838
nsv1043967 CNV loss 25217958
nsv1046590 CNV gain 25217958
nsv1054992 CNV loss 25217958
nsv1075666 CNV deletion 25765185
nsv1115841 CNV duplication 24896259
nsv1147279 CNV deletion 26484159
nsv415939 CNV deletion 16902084
nsv479416 CNV novel sequence insertion 20440878
nsv512111 CNV loss 21212237
nsv527229 CNV loss 19592680
nsv6642 CNV deletion 18451855
nsv831672 CNV gain 17160897
nsv957107 CNV deletion 24416366

Variation tolerance for GRIN3A Gene

Residual Variation Intolerance Score: 44.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 20.74; 99.16% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GRIN3A Gene

Human Gene Mutation Database (HGMD)
GRIN3A
SNPedia medical, phenotypic, and genealogical associations of SNPs for
GRIN3A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GRIN3A Gene

Disorders for GRIN3A Gene

MalaCards: The human disease database

(1) MalaCards diseases for GRIN3A Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
lingual-facial-buccal dyskinesia
  • oro-facial dyskinesia
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for GRIN3A

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with GRIN3A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for GRIN3A Gene

Publications for GRIN3A Gene

  1. Exomic sequencing of the ionotropic glutamate receptor N-methyl-D-aspartate 3A gene (GRIN3A) reveals no association with schizophrenia. (PMID: 19665356) Shen YC … Chen CH (Schizophrenia research 2009) 3 22 44 58
  2. Genetic variation in N-methyl-D-aspartate receptor subunit NR3A but not NR3B influences susceptibility to Alzheimer's disease. (PMID: 20016182) Liu HP … Tsai FJ (Dementia and geriatric cognitive disorders 2009) 3 22 44 58
  3. Genetic variations of the NR3A subunit of the NMDA receptor modulate prefrontal cerebral activity in humans. (PMID: 17214563) Gallinat J … Winterer G (Journal of cognitive neuroscience 2007) 3 22 44 58
  4. Cloning and expression of the human N-methyl-D-aspartate receptor subunit NR3A. (PMID: 11880201) Eriksson M … Sundström E (Neuroscience letters 2002) 3 4 22 58
  5. Nucleotide sequence, genomic organization, and chromosomal localization of genes encoding the human NMDA receptor subunits NR3A and NR3B. (PMID: 11735224) Andersson O … von Euler G (Genomics 2001) 3 4 22 58

Products for GRIN3A Gene

Sources for GRIN3A Gene

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