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    VGF VGF nerve growth factor inducible [ Homo sapiens (human) ]

    Gene ID: 7425, updated on 2-Nov-2024

    Summary

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    Official Symbol
    VGFprovided by HGNC
    Official Full Name
    VGF nerve growth factor inducibleprovided by HGNC
    Primary source
    HGNC:HGNC:12684
    See related
    Ensembl:ENSG00000128564 MIM:602186; AllianceGenome:HGNC:12684
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SCG7; SgVII
    Summary
    This gene is specifically expressed in a subpopulation of neuroendocrine cells, and is upregulated by nerve growth factor. The structural organization of this gene is similar to that of the rat gene, and both the translated and the untranslated regions show a high degree of sequence similarity to the rat gene. The encoded secretory protein also shares similarities with the secretogranin/chromogranin family, however, its exact function is not known. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in brain (RPKM 14.2) and fat (RPKM 1.5) See more
    Orthologs
    mouse all
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    Genomic context

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    See VGF in Genome Data Viewer
    Location:
    7q22.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (101162509..101169952, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (102485258..102492805, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (100805790..100808850, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100770821-100771600 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100771601-100772380 Neighboring gene serpin family E member 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100778603-100779104 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100781393-100782168 Neighboring gene negCOR silencer S6 Neighboring gene Sharpr-MPRA regulatory region 5920 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:100798163-100798663 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:100799642-100800841 Neighboring gene adaptor related protein complex 1 subunit sigma 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18475 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18477 Neighboring gene microRNA 4653 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18478 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:100812095-100812265 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100814834-100815448 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100815449-100816062 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100816063-100816676 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:100816815-100817027 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100817327-100817832 Neighboring gene N-acetyltransferase 16 (putative) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100823355-100824077 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:100825811-100826028 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100838952-100839452 Neighboring gene monoacylglycerol O-acyltransferase 3

    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 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. Epigenetic modifications of the VGF gene in human non-small cell lung cancer tissues pave the way towards enhanced expression. Marwitz S, et al. Clin Epigenetics, 2017. PMID 29209432, Free PMC Article
    2. Age-related increase of VGF-expression in T lymphocytes. Busse S, et al. Aging (Albany NY), 2014 Jun. PMID 25013207, Free PMC Article
    3. Epigenetic inactivation of VGF associated with Urothelial Cell Carcinoma and its potential as a non-invasive biomarker using urine. Hayashi M, et al. Oncotarget, 2014 May 30. PMID 24830820, Free PMC Article
    4. VGF expression by T lymphocytes in patients with Alzheimer's disease. Busse S, et al. Oncotarget, 2015 Jun 20. PMID 26142708, Free PMC Article
    5. The neuropeptide VGF is reduced in human bipolar postmortem brain and contributes to some of the behavioral and molecular effects of lithium. Thakker-Varia S, et al. J Neurosci, 2010 Jul 14. PMID 20631166, Free PMC Article

    See all (49) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Changes in expression of VGF, SPECC1L, HLA-DRA and RANBP3L act with APOE E4 to alter risk for late onset Alzheimer's disease.
      Title: Changes in expression of VGF, SPECC1L, HLA-DRA and RANBP3L act with APOE E4 to alter risk for late onset Alzheimer's disease.
    2. Associations of VGF with Neuropathologies and Cognitive Health in Older Adults.
      Title: Associations of VGF with Neuropathologies and Cognitive Health in Older Adults.
    3. Structure of AQEE-30 of VGF Neuropeptide in Membrane-Mimicking Environments.
      Title: Structure of AQEE-30 of VGF Neuropeptide in Membrane-Mimicking Environments.
    4. Neuronal survival factor VGF promotes chemoresistance and predicts poor prognosis in lung cancers with neuroendocrine feature.
      Title: Neuronal survival factor VGF promotes chemoresistance and predicts poor prognosis in lung cancers with neuroendocrine feature.
    5. Low VGF is associated with executive dysfunction in patients with major depressive disorder.
      Title: Low VGF is associated with executive dysfunction in patients with major depressive disorder.
    6. Changes in VGF and C3aR1 gene expression in human adipose tissue in obesity.
      Title: Changes in VGF and C3aR1 gene expression in human adipose tissue in obesity.
    7. Multiscale causal networks identify VGF as a key regulator of Alzheimer's disease.
      Title: Multiscale causal networks identify VGF as a key regulator of Alzheimer's disease.
    8. Serum VGF levels were significantly lower in MDD patients but higher in BD patients compared with HC (both PTukey < 0.01). No correlation was found between serum VGF levels and any data of subjects.
      Title: Higher serum VGF protein levels discriminate bipolar depression from major depressive disorder.
    9. H19 is a promising prognostic factor in Pancreatic neuroendocrine neoplasms (pNENs) with malignant behaviors and functions as an oncogene via the VGF-mediated PI3K/AKT/CREB pathway. In addition, our study implies that VGF may also serve as a candidate prognostic biomarker and therapeutic target in pNENs.
      Title: lncRNA H19 binds VGF and promotes pNEN progression via PI3K/AKT/CREB signaling.
    10. Results show that VGF is epigenetically modified in human non-small-cell lung cancer (NSCLC) tissues if compared to tumor-free lung tissues, which results in an increased transcription and protein expression.
      Title: Epigenetic modifications of the VGF gene in human non-small cell lung cancer tissues pave the way towards enhanced expression.
    Submit: New GeneRIF Correction See all GeneRIFs (32)

    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)

    Genotypes

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables growth factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hormone activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables neuropeptide hormone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in carbohydrate homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in defense response to bacterium IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in generation of precursor metabolites and energy IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in glucose homeostasis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in insulin secretion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ovarian follicle development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of neuronal synaptic plasticity IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of synaptic plasticity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to cAMP IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to cold IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to dietary excess IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to insulin IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in sexual reproduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in synaptic signaling via neuropeptide IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum lumen TAS
    Traceable Author Statement
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    		  
    located_in neuronal cell body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in transport vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    neurosecretory protein VGF
    Names
    neuro-endocrine specific protein VGF

    NCBI Reference Sequences (RefSeq)

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    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_003378.4 → NP_003369.2  neurosecretory protein VGF precursor

      See identical proteins and their annotated locations for NP_003369.2

      Status: REVIEWED

      Source sequence(s)
      BC036537, BC063835
      Consensus CDS
      CCDS5712.1
      UniProtKB/Swiss-Prot
      O15240, Q9UDW8
      Related
      ENSP00000249330.2, ENST00000249330.3

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      101162509..101169952 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011516549.4 → XP_011514851.1  neurosecretory protein VGF isoform X1

      See identical proteins and their annotated locations for XP_011514851.1

      UniProtKB/Swiss-Prot
      O15240, Q9UDW8

    2. XM_005250561.6 → XP_005250618.1  neurosecretory protein VGF isoform X1

      See identical proteins and their annotated locations for XP_005250618.1

      UniProtKB/Swiss-Prot
      O15240, Q9UDW8
      Related
      ENSP00000400884.2, ENST00000445482.2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      102485258..102492805 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054358937.1 → XP_054214912.1  neurosecretory protein VGF isoform X1

      UniProtKB/Swiss-Prot
      O15240, Q9UDW8

    2. XM_054358935.1 → XP_054214910.1  neurosecretory protein VGF isoform X1

      UniProtKB/Swiss-Prot
      O15240, Q9UDW8

    3. XM_054358936.1 → XP_054214911.1  neurosecretory protein VGF isoform X1

      UniProtKB/Swiss-Prot
      O15240, Q9UDW8
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O15240.2 GenPept UniProtKB/Swiss-Prot:O15240

    Gene LinkOut

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

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