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    NDRG3 NDRG family member 3 [ Homo sapiens (human) ]

    Gene ID: 57446, updated on 27-Nov-2024

    Summary

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    Official Symbol
    NDRG3provided by HGNC
    Official Full Name
    NDRG family member 3provided by HGNC
    Primary source
    HGNC:HGNC:14462
    See related
    Ensembl:ENSG00000101079 MIM:605273; AllianceGenome:HGNC:14462
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to be involved in decidualization and signal transduction. Located in cytoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in brain (RPKM 38.0), prostate (RPKM 20.1) and 23 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See NDRG3 in Genome Data Viewer
    Location:
    20q11.23
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (36651771..36746090, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (38376108..38470363, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (35280174..35374493, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene TGIF2-RAB5IF readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12876 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr20:35235327-35236526 Neighboring gene RAB5 interacting factor Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:35261429-35261930 Neighboring gene Src like adaptor 2 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr20:35271232-35271902 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:35305009-35305810 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:35324917-35325417 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35373956-35374922 Neighboring gene MPRA-validated peak4204 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:35393973-35394472 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:35399249-35399414 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:35401925-35402470 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35402471-35403017 Neighboring gene uncharacterized LOC124904894 Neighboring gene DSN1 component of MIS12 kinetochore complex

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. High expression of NDRG3 associates with positive lymph node metastasis and unfavourable overall survival in laryngeal squamous cell carcinoma. Ma J, et al. Pathology, 2016 Dec. PMID 27780595
    2. NDRG3 lowers the metastatic potential in prostate cancer as a feedback controller of hypoxia-inducible factors. Lee GY, et al. Exp Mol Med, 2018 May 14. PMID 29760417, Free PMC Article
    3. NDRG3 overexpression is associated with a poor prognosis in patients with hepatocellular carcinoma. Jing JS, et al. Biosci Rep, 2018 Dec 21. PMID 30413609, Free PMC Article
    4. High expression of NDRG3 associates with unfavorable overall survival in non-small cell lung cancer. Luo X, et al. Cancer Biomark, 2018 Feb 6. PMID 29171988
    5. Structural and Biophysical Analyses of Human N-Myc Downstream-Regulated Gene 3 (NDRG3) Protein. Kim KR, et al. Biomolecules, 2020 Jan 6. PMID 31935861, Free PMC Article

    See all (49) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Lactate promotes neuronal differentiation of SH-SY5Y cells by lactate-responsive gene sets through NDRG3-dependent and -independent manners.
      Title: Lactate promotes neuronal differentiation of SH-SY5Y cells by lactate-responsive gene sets through NDRG3-dependent and -independent manners.
    2. NDRG3 regulates imatinib resistance by promoting beta-catenin accumulation in the nucleus in chronic myelogenous leukemia.
      Title: NDRG3 regulates imatinib resistance by promoting β‑catenin accumulation in the nucleus in chronic myelogenous leukemia.
    3. The LINC01410/miR-122-5p/NDRG3 axis is involved in the proliferation and migration of osteosarcoma cells.
      Title: The LINC01410/miR-122-5p/NDRG3 axis is involved in the proliferation and migration of osteosarcoma cells.
    4. High expression of NDRG3 correlates with poor prognosis in gastric cancer patients.
      Title: High expression of NDRG3 correlates with poor prognosis in gastric cancer patients.
    5. Structural and Biophysical Analyses of Human N-Myc Downstream-Regulated Gene 3 (NDRG3) Protein.
      Title: Structural and Biophysical Analyses of Human N-Myc Downstream-Regulated Gene 3 (NDRG3) Protein.
    6. high NDRG3 expression facilitates HCC metastasis via regulating the turnover of beta-catenin, as well as provides a potential therapeutic target for future therapeutic interventions
      Title: High NDRG3 expression facilitates HCC metastasis by promoting nuclear translocation of β-catenin.
    7. The results revealed that compared with non-tumor tissues, hepatocellular carcinoma tissues showed significantly higher NDRG3 expression.
      Title: NDRG3 overexpression is associated with a poor prognosis in patients with hepatocellular carcinoma.
    8. NDRG3 may have an anti-metastatic function in prostate cancer under a hypoxic microenvironment.
      Title: NDRG3 lowers the metastatic potential in prostate cancer as a feedback controller of hypoxia-inducible factors.
    9. The IHC data demonstrated that the NDRG3 expression was significantly correlated with pathological grade (p= 0.038), N (p= 0.020) and TNM stage (p= 0.002) in non-small cell lung cancer.
      Title: High expression of NDRG3 associates with unfavorable overall survival in non-small cell lung cancer.
    10. increased NDRG3 expression is associated with hepatocellular carcinoma and drug resistance.
      Title: MicroRNA31-NDRG3 regulation axes are essential for hepatocellular carcinoma survival and drug resistance.
    Submit: New GeneRIF Correction See all GeneRIFs (19)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of NDRG family member 3 (NDRG3) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ13556

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in cell differentiation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in negative regulation of cell growth NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatogenesis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular exosome HDA PubMed 

    General protein information

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    Preferred Names
    protein NDRG3
    Names
    N-myc downstream-regulated gene 3 protein

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_022477.4 → NP_071922.2  protein NDRG3 isoform b

      See identical proteins and their annotated locations for NP_071922.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1, resulting in an isoform (b) that is shorter compared to isoform a.
      Source sequence(s)
      AA903471, AF308609, AK023618, AL132768, BC136489
      Consensus CDS
      CCDS13284.1
      UniProtKB/Swiss-Prot
      Q9UGV2
      Related
      ENSP00000352703.2, ENST00000359675.6
      Conserved Domains (1) summary
      pfam03096
      Location:20 → 305
      Ndr; Ndr family

    2. NM_032013.4 → NP_114402.1  protein NDRG3 isoform a

      See identical proteins and their annotated locations for NP_114402.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a).
      Source sequence(s)
      AA903471, AB044943, AF308609, AL132768
      Consensus CDS
      CCDS13285.1
      UniProtKB/Swiss-Prot
      A2A2S8, E1P5U7, E1P5U8, Q5TH32, Q96PL8, Q96SM2, Q9BXY7, Q9H3N7, Q9H411, Q9H8J6, Q9UGV2
      Related
      ENSP00000345292.1, ENST00000349004.6
      Conserved Domains (1) summary
      pfam03096
      Location:32 → 317
      Ndr; Ndr family

    RNA

    1. NR_038370.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AA903471, AF308609, AK295420, AL132768, BC136489

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      36651771..36746090 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011528927.4 → XP_011527229.1  protein NDRG3 isoform X5

      See identical proteins and their annotated locations for XP_011527229.1

      Conserved Domains (1) summary
      pfam03096
      Location:20 → 305
      Ndr; Ndr family

    2. XM_011528928.4 → XP_011527230.1  protein NDRG3 isoform X8

      UniProtKB/TrEMBL
      B7Z323
      Related
      ENSP00000362878.3, ENST00000373773.7
      Conserved Domains (2) summary
      COG0596
      Location:19 → 220
      MhpC; Pimeloyl-ACP methyl ester carboxylesterase [Coenzyme transport and metabolism, General function prediction only]
      cl21494
      Location:6 → 225
      Abhydrolase; alpha/beta hydrolases

    3. XM_006723837.5 → XP_006723900.1  protein NDRG3 isoform X3

      See identical proteins and their annotated locations for XP_006723900.1

      UniProtKB/TrEMBL
      Q5TH30
      Related
      ENSP00000362909.2, ENST00000373803.6
      Conserved Domains (1) summary
      pfam03096
      Location:32 → 317
      Ndr; Ndr family

    4. XM_017027979.2 → XP_016883468.1  protein NDRG3 isoform X6

      UniProtKB/Swiss-Prot
      A2A2S8, E1P5U7, E1P5U8, Q5TH32, Q96PL8, Q96SM2, Q9BXY7, Q9H3N7, Q9H411, Q9H8J6, Q9UGV2
      Conserved Domains (1) summary
      pfam03096
      Location:32 → 317
      Ndr; Ndr family

    5. XM_017027978.3 → XP_016883467.1  protein NDRG3 isoform X3

      UniProtKB/TrEMBL
      Q5TH30
      Conserved Domains (1) summary
      pfam03096
      Location:32 → 317
      Ndr; Ndr family

    6. XM_017027980.3 → XP_016883469.1  protein NDRG3 isoform X7

    7. XM_006723838.5 → XP_006723901.1  protein NDRG3 isoform X4

      Conserved Domains (2) summary
      COG0596
      Location:29 → 303
      MhpC; Pimeloyl-ACP methyl ester carboxylesterase [Coenzyme transport and metabolism, General function prediction only]
      pfam03096
      Location:23 → 308
      Ndr; Ndr family

    8. XM_011528926.3 → XP_011527228.1  protein NDRG3 isoform X2

      UniProtKB/TrEMBL
      F8WBF9
      Conserved Domains (2) summary
      COG0596
      Location:8 → 282
      MhpC; Pimeloyl-ACP methyl ester carboxylesterase [Coenzyme transport and metabolism, General function prediction only]
      pfam03096
      Location:2 → 287
      Ndr; Ndr family

    9. XM_011528925.4 → XP_011527227.1  protein NDRG3 isoform X1

      Conserved Domains (2) summary
      COG0596
      Location:8 → 282
      MhpC; Pimeloyl-ACP methyl ester carboxylesterase [Coenzyme transport and metabolism, General function prediction only]
      pfam03096
      Location:2 → 287
      Ndr; Ndr family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      38376108..38470363 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323763.1 → XP_054179738.1  protein NDRG3 isoform X5

    2. XM_054323766.1 → XP_054179741.1  protein NDRG3 isoform X8

    3. XM_054323760.1 → XP_054179735.1  protein NDRG3 isoform X3

      UniProtKB/TrEMBL
      Q5TH30

    4. XM_054323764.1 → XP_054179739.1  protein NDRG3 isoform X6

      UniProtKB/Swiss-Prot
      A2A2S8, E1P5U7, E1P5U8, Q5TH32, Q96PL8, Q96SM2, Q9BXY7, Q9H3N7, Q9H411, Q9H8J6, Q9UGV2

    5. XM_054323761.1 → XP_054179736.1  protein NDRG3 isoform X3

      UniProtKB/TrEMBL
      Q5TH30

    6. XM_054323762.1 → XP_054179737.1  protein NDRG3 isoform X4

    7. XM_054323765.1 → XP_054179740.1  protein NDRG3 isoform X7

    8. XM_054323759.1 → XP_054179734.1  protein NDRG3 isoform X2

    9. XM_054323758.1 → XP_054179733.1  protein NDRG3 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9UGV2.2 GenPept UniProtKB/Swiss-Prot:Q9UGV2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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