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    SEC62 SEC62 homolog, preprotein translocation factor [ Homo sapiens (human) ]

    Gene ID: 7095, updated on 3-Nov-2024

    Summary

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    Official Symbol
    SEC62provided by HGNC
    Official Full Name
    SEC62 homolog, preprotein translocation factorprovided by HGNC
    Primary source
    HGNC:HGNC:11846
    See related
    Ensembl:ENSG00000008952 MIM:602173; AllianceGenome:HGNC:11846
    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
    HTP1; TP-1; Dtrp1; TLOC1
    Summary
    The Sec61 complex is the central component of the protein translocation apparatus of the endoplasmic reticulum (ER) membrane. The protein encoded by this gene and SEC63 protein are found to be associated with ribosome-free SEC61 complex. It is speculated that Sec61-Sec62-Sec63 may perform post-translational protein translocation into the ER. The Sec61-Sec62-Sec63 complex might also perform the backward transport of ER proteins that are subject to the ubiquitin-proteasome-dependent degradation pathway. The encoded protein is an integral membrane protein located in the rough ER. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 46.4), brain (RPKM 36.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SEC62 in Genome Data Viewer
    Location:
    3q26.2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (169966807..169998373)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (172751051..172783070)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (169684595..169716161)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene sterile alpha motif domain containing 7 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:169653188-169653290 Neighboring gene family with sequence similarity 20 member B pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20789 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20790 Neighboring gene FHL1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20791 Neighboring gene NANOG hESC enhancer GRCh37_chr3:169686270-169686802 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20792 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14877 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr3:169756663-169757162 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14878 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20793 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:169763504-169764004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20794 Neighboring gene uncharacterized LOC124909455 Neighboring gene G protein-coupled receptor 160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20795 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20796 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20797 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169773599-169774098 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169779520-169780041 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169780042-169780562 Neighboring gene RNA, U4 small nuclear 38, pseudogene Neighboring gene KMT5A pseudogene 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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The 3q Oncogene SEC62 Predicts Response to Neoadjuvant Chemotherapy and Regulates Tumor Cell Migration in Triple Negative Breast Cancer.
      Title: The 3q Oncogene SEC62 Predicts Response to Neoadjuvant Chemotherapy and Regulates Tumor Cell Migration in Triple Negative Breast Cancer.
    2. Splicing factor SNRPA associated with microvascular invasion promotes hepatocellular carcinoma metastasis through activating NOTCH1/Snail pathway and is mediated by circSEC62/miR-625-5p axis.
      Title: Splicing factor SNRPA associated with microvascular invasion promotes hepatocellular carcinoma metastasis through activating NOTCH1/Snail pathway and is mediated by circSEC62/miR-625-5p axis.
    3. Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
      Title: Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
    4. Sec62 promotes stemness and chemoresistance of human colorectal cancer through activating Wnt/beta-catenin pathway.
      Title: Sec62 promotes stemness and chemoresistance of human colorectal cancer through activating Wnt/β-catenin pathway.
    5. Identification of signal peptide features for substrate specificity in human Sec62/Sec63-dependent ER protein import.
      Title: Identification of signal peptide features for substrate specificity in human Sec62/Sec63-dependent ER protein import.
    6. miR-4429 prevented gastric cancer progression through targeting METTL3 to inhibit m(6)A-caused stabilization of SEC62
      Title: MiR-4429 prevented gastric cancer progression through targeting METTL3 to inhibit m(6)A-caused stabilization of SEC62.
    7. In tissue samples from 53 breast cancer patients,found increased SEC62 protein levels in tumor tissue compared to tumor-free tissue from the same patients. Tumors with high SEC62 expression or containing isolated cells with high SEC62 staining had more frequently distant metastases. ). Overall survival was significantly worse in BC patients with high SEC62 expression and in cases with isolated-intense SEC62 staining.
      Title: Identification of 3q oncogene SEC62 as a marker for distant metastasis and poor clinical outcome in invasive ductal breast cancer.
    8. Results show higher SEC62 in the lymph node metastases from head and neck squamous cell carcinomas and cervical cancer of unknown primary patients compared with the primary tumor. Tumors from N1 to N3 stage exhibit increasing SEC62 expression in the lymphatic metastases. Its knockdown resulted in tumor cell line migration inhibition while, its overexpression stimulated cell migration.
      Title: Effect of 3q oncogenes SEC62 and SOX2 on lymphatic metastasis and clinical outcome of head and neck squamous cell carcinomas.
    9. High Sec62 expression is associated with dysplastic cervical lesions.
      Title: Identification of SEC62 as a potential marker for 3q amplification and cellular migration in dysplastic cervical lesions.
    10. identify Sec62 as a critical molecular component in maintenance and recovery of endoplasmic reticulum homeostasis
      Title: Translocon component Sec62 acts in endoplasmic reticulum turnover during stress recovery.
    Submit: New GeneRIF Correction See all GeneRIFs (20)

    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

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 is identified to have a physical interaction with SEC62 homolog (SEC62) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses 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

    • FLJ32803

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables signaling receptor activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cotranslational protein targeting to membrane TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within post-translational protein targeting to endoplasmic reticulum membrane IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in post-translational protein targeting to membrane, translocation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in post-translational protein targeting to membrane, translocation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in rough endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    translocation protein SEC62
    Names
    SEC62 preprotein translocation factor
    hTP-1
    membrane protein SEC62, S.cerevisiae, homolog of
    translocation protein 1

    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_003262.4 → NP_003253.1  translocation protein SEC62

      See identical proteins and their annotated locations for NP_003253.1

      Status: REVIEWED

      Source sequence(s)
      AC008040
      Consensus CDS
      CCDS3210.1
      UniProtKB/Swiss-Prot
      D3DNQ0, O00682, O00729, Q99442
      Related
      ENSP00000337688.4, ENST00000337002.9
      Conserved Domains (2) summary
      pfam05793
      Location:290 → 369
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      pfam03839
      Location:170 → 305
      Sec62; Translocation protein Sec62

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      169966807..169998373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047448819.1 → XP_047304775.1  translocation protein SEC62 isoform X1

    2. XM_011513114.4 → XP_011511416.1  translocation protein SEC62 isoform X1

      See identical proteins and their annotated locations for XP_011511416.1

      Conserved Domains (2) summary
      pfam05793
      Location:252 → 331
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      pfam03839
      Location:132 → 267
      Sec62; Translocation protein Sec62

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      172751051..172783070
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054347706.1 → XP_054203681.1  translocation protein SEC62 isoform X1

    2. XM_054347705.1 → XP_054203680.1  translocation protein SEC62 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99442.1 GenPept UniProtKB/Swiss-Prot:Q99442

    Gene LinkOut

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