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    RPN2 ribophorin II [ Homo sapiens (human) ]

    Gene ID: 6185, updated on 14-Nov-2024

    Summary

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    Official Symbol
    RPN2provided by HGNC
    Official Full Name
    ribophorin IIprovided by HGNC
    Primary source
    HGNC:HGNC:10382
    See related
    Ensembl:ENSG00000118705 MIM:180490; AllianceGenome:HGNC:10382
    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
    SWP1; RPNII; RIBIIR; RPN-II
    Summary
    This gene encodes a type I integral membrane protein found only in the rough endoplasmic reticulum. The encoded protein is part of an N-oligosaccharyl transferase complex that links high mannose oligosaccharides to asparagine residues found in the Asn-X-Ser/Thr consensus motif of nascent polypeptide chains. This protein is similar in sequence to the yeast oligosaccharyl transferase subunit SWP1. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 122.3), placenta (RPKM 121.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See RPN2 in Genome Data Viewer
    Location:
    20q11.23
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (37179330..37241619)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (38903678..38965687)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (35807733..35870022)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene RB transcriptional corepressor like 1 Neighboring gene RPS27A pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17827 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35724092-35724768 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17829 Neighboring gene maestro heat like repeat family member 8 Neighboring gene ribosomal protein L13 pseudogene Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35807291-35807850 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35807851-35808408 Neighboring gene Sharpr-MPRA regulatory region 9458 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35821940-35822774 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35858877-35859417 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:35886402-35886635 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12887 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35896280-35896826 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35896827-35897374 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17832 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12888 Neighboring gene growth hormone releasing hormone Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17833 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:35918028-35918932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17834 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35943167-35944074 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:35944075-35944984 Neighboring gene mannosidase beta like

    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. RPN2 in cancer: An overview.
      Title: RPN2 in cancer: An overview.
    2. The N(6)-methyladenosine-mediated lncRNA WEE2-AS1 promotes glioblastoma progression by stabilizing RPN2.
      Title: The N(6)-methyladenosine-mediated lncRNA WEE2-AS1 promotes glioblastoma progression by stabilizing RPN2.
    3. Sevoflurane represses the progression of glioma by the regulation of circ_0037655/miR-130a-5p/RPN2 axis.
      Title: Sevoflurane represses the progression of glioma by the regulation of circ_0037655/miR-130a-5p/RPN2 axis.
    4. Ribophorin II promotes the epithelial-mesenchymal transition and aerobic glycolysis of laryngeal squamous cell carcinoma via regulating reactive oxygen species-mediated Phosphatidylinositol-3-Kinase/Protein Kinase B activation.
      Title: Ribophorin II promotes the epithelial-mesenchymal transition and aerobic glycolysis of laryngeal squamous cell carcinoma via regulating reactive oxygen species-mediated Phosphatidylinositol-3-Kinase/Protein Kinase B activation.
    5. Epigenetically-regulated RPN2 gene influences lymphocyte activation and is involved in pathogenesis of rheumatoid arthritis.
      Title: Epigenetically-regulated RPN2 gene influences lymphocyte activation and is involved in pathogenesis of rheumatoid arthritis.
    6. Overexpression of ribophorin II is required for viability of nasopharyngeal cancer cells by regulating JAK1/STAT3 activation.
      Title: Overexpression of ribophorin II is required for viability of nasopharyngeal cancer cells by regulating JAK1/STAT3 activation.
    7. Overexpression of RPN2 suppresses radiosensitivity of glioma cells by activating STAT3 signal transduction.
      Title: Overexpression of RPN2 suppresses radiosensitivity of glioma cells by activating STAT3 signal transduction.
    8. MicroRNA422a functions as a tumor suppressor in glioma by regulating the Wnt/betacatenin signaling pathway via RPN2.
      Title: MicroRNA‑422a functions as a tumor suppressor in glioma by regulating the Wnt/β‑catenin signaling pathway via RPN2.
    9. An Extended Conformation for K48 Ubiquitin Chains Revealed by the hRpn2:Rpn13:K48-Diubiquitin Structure.
      Title: An Extended Conformation for K48 Ubiquitin Chains Revealed by the hRpn2:Rpn13:K48-Diubiquitin Structure.
    10. RPN2 is targeted by miR-181c and mediates glioma progression and temozolomide sensitivity via the wnt/beta-catenin signaling pathway.
      Title: RPN2 is targeted by miR-181c and mediates glioma progression and temozolomide sensitivity via the wnt/β-catenin signaling pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (28)

    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

    EBI GWAS Catalog

    Description
    Hippocampal atrophy as a quantitative trait in a genome-wide association study identifying novel susceptibility genes for Alzheimer's disease.
    EBI GWAS Catalog

    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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    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat Expression of HIV-1 Tat upregulates the abundance of ribophorin II (RPN2) in the nucleoli of Jurkat T-cells PubMed

    Go to the HIV-1, Human Interaction Database

    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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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    contributes_to dolichyl-diphosphooligosaccharide-protein glycotransferase activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein N-linked glycosylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein N-linked glycosylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein N-linked glycosylation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in protein modification process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		  
    located_in endoplasmic reticulum membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in endoplasmic reticulum membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in membrane HDA PubMed 
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
    		  
    part_of oligosaccharyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of oligosaccharyltransferase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of oligosaccharyltransferase complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of oligosaccharyltransferase complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2
    Names
    dolichyl-diphosphooligosaccharide--protein glycosyltransferase 63 kDa subunit
    oligosaccharyltransferase complex subunit (non-catalytic)
    ribophorin-2
    NP_001129243.1
    NP_001311228.1
    NP_001311230.1
    NP_001311231.1
    NP_001311232.1
    NP_001311233.1
    NP_001311234.1
    NP_001311235.1
    NP_002942.2
    XP_006723914.1
    XP_006723915.1
    XP_054179775.1
    XP_054179776.1
    XP_054189254.1
    XP_054189255.1

    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.

    Genomic

    1. NG_042268.1 RefSeqGene

      Range
      5278..67567
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001135771.3 → NP_001129243.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001129243.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) encodes isoform 2. Variants 2 and 3 are the same length and encode isoforms (2 and 3, respectively) of the same length but their variant and encoded isoform sequences are different.
      Source sequence(s)
      AK096243, BC002380, BF923732
      Consensus CDS
      CCDS46599.1
      UniProtKB/TrEMBL
      A0A994J5J1
      Related
      ENSP00000362724.5, ENST00000373622.9
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 591
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    2. NM_001324299.2 → NP_001311228.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) encodes isoform 3. Variants 2 and 3 are the same length and encode isoforms (2 and 3, respectively) of the same length but their variant and encoded isoform sequences are different.
      Source sequence(s)
      AL031659, BC002380
      UniProtKB/TrEMBL
      A0A994J5J1

    3. NM_001324301.2 → NP_001311230.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AL031659, BC002380
      UniProtKB/TrEMBL
      A0A994J5J1
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 639
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    4. NM_001324302.2 → NP_001311231.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 5 precursor

      Status: REVIEWED

      Source sequence(s)
      AL031659, BC002380
      UniProtKB/TrEMBL
      B2RE46

    5. NM_001324303.2 → NP_001311232.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 6 precursor

      Status: REVIEWED

      Source sequence(s)
      AL031659, BC002380
      UniProtKB/TrEMBL
      B2RE46

    6. NM_001324304.2 → NP_001311233.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 7 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) encodes isoform 7. Variants 7 and 8 are the same length and encode isoforms (7 and 8, respectively) of the same length but their variant and encoded isoform sequences are different.
      Source sequence(s)
      AL031659, BC002380, BG718075
      UniProtKB/TrEMBL
      A0A994J5J1
      Related
      ENSP00000516126.1, ENST00000705448.1
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 623
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    7. NM_001324305.2 → NP_001311234.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 8 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8) encodes isoform 8. Variants 7 and 8 are the same length and encode isoforms (7 and 8, respectively) of the same length but their variant and encoded isoform sequences are different.
      Source sequence(s)
      AL031659, BC002380
      UniProtKB/TrEMBL
      B2RE46
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 639
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    8. NM_001324306.2 → NP_001311235.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 9

      Status: REVIEWED

      Source sequence(s)
      AL031659, BC002380
      UniProtKB/Swiss-Prot
      P04844

    9. NM_002951.5 → NP_002942.2  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_002942.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      BC002380, BC020222, BF923732, BG718075
      Consensus CDS
      CCDS13291.1
      UniProtKB/Swiss-Prot
      P04844, Q5JYR6, Q6IBA5, Q96E21, Q9BUQ3, Q9UBE1
      UniProtKB/TrEMBL
      B2RE46
      Related
      ENSP00000237530.6, ENST00000237530.11
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 624
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    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
      37179330..37241619
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006723851.4 → XP_006723914.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X1

      UniProtKB/TrEMBL
      A0A994J5J1
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 607
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    2. XM_006723852.4 → XP_006723915.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X2

      UniProtKB/TrEMBL
      B2RE46
      Conserved Domains (1) summary
      pfam05817
      Location:9 → 607
      Ribophorin_II; Oligosaccharyltransferase subunit Ribophorin II

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791812.1 Reference GRCh38.p14 PATCHES

      Range
      88803..151121
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333279.1 → XP_054189254.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X1

    2. XM_054333280.1 → XP_054189255.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      38903678..38965687
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323800.1 → XP_054179775.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X1

    2. XM_054323801.1 → XP_054179776.1  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P04844.3 GenPept UniProtKB/Swiss-Prot:P04844

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