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RPN2 ribophorin II [ Homo sapiens (human) ]

Gene ID: 6185, updated on 7-Apr-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
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Genomic context

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Location:
20q11.23
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (37179330..37241619)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (38903678..38965687)
105.20220307 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
  • 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. RPN2 in cancer: An overview. Han Z, et al. Gene, 2023 Mar 20. PMID 36621657
  2. 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. Zhou J, et al. Bioengineered, 2022 Mar. PMID 35156537, Free PMC Article
  3. Epigenetically-regulated RPN2 gene influences lymphocyte activation and is involved in pathogenesis of rheumatoid arthritis. He P, et al. Gene, 2022 Feb 5. PMID 34740730
  4. Overexpression of ribophorin II is required for viability of nasopharyngeal cancer cells by regulating JAK1/STAT3 activation. Wang B, et al. Immunopharmacol Immunotoxicol, 2021 Aug. PMID 34184962
  5. Ribophorin II is upregulated in myelodysplastic syndromes and prevents apoptosis and cell cycle progression. Ren J, et al. Exp Biol Med (Maywood), 2020 Jun. PMID 32447991, Free PMC Article

See all (195) citations in PubMed

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 (29)

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)

Genotypes

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 via asparagine 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 

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_2023_10

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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