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RNF180 ring finger protein 180 [ Homo sapiens (human) ]

Gene ID: 285671, updated on 23-Nov-2023

Summary

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Official Symbol
RNF180provided by HGNC
Official Full Name
ring finger protein 180provided by HGNC
Primary source
HGNC:HGNC:27752
See related
Ensembl:ENSG00000164197 MIM:616015; AllianceGenome:HGNC:27752
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
Also known as
RINES
Summary
Predicted to enable ubiquitin conjugating enzyme binding activity and ubiquitin protein ligase activity. Predicted to be involved in norepinephrine metabolic process; positive regulation of proteasomal ubiquitin-dependent protein catabolic process; and serotonin metabolic process. Predicted to act upstream of or within several processes, including adult behavior; positive regulation of protein ubiquitination; and protein polyubiquitination. Predicted to be located in nuclear envelope. Predicted to be integral component of membrane. Predicted to be intrinsic component of endoplasmic reticulum membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in thyroid (RPKM 3.9), brain (RPKM 2.6) and 23 other tissues See more
Orthologs
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Genomic context

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See RNF180 in Genome Data Viewer
Location:
5q12.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (64165351..64372869)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (64985393..65192972)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (63461670..63668696)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378999 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:63256149-63256370 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:63257009-63257986 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:63315837-63316027 Neighboring gene 5-hydroxytryptamine receptor 1A Neighboring gene Sharpr-MPRA regulatory region 1263 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:63702820-63703320 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:63703321-63703821 Neighboring gene regulator of G protein signaling 7 binding protein Neighboring gene RNA, 7SL, cytoplasmic 169, pseudogene Neighboring gene RNA, U6 small nuclear 294, pseudogene

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. Mediation of the malignant biological characteristics of gastric cancer cells by the methylated CpG islands in RNF180 DNA promoter. Deng J, et al. Oncotarget, 2016 Jul 12. PMID 27223257, Free PMC Article
  2. Promoter methylation of RNF180 is associated with H.pylori infection and serves as a marker for gastric cancer and atrophic gastritis. Han F, et al. Oncotarget, 2016 Apr 26. PMID 27050149, Free PMC Article
  3. Clinical and experimental role of ring finger protein 180 on lymph node metastasis and survival in gastric cancer. Deng J, et al. Br J Surg, 2016 Mar. PMID 26805552
  4. Evaluating the clinical feasibility: The direct bisulfite genomic sequencing for examination of methylated status of E3 ubiquitin ligase RNF180 DNA promoter to predict the survival of gastric cancer. Xie XM, et al. Cancer Biomark, 2015. PMID 25769451
  5. Methylation of CpG sites in RNF180 DNA promoter prediction poor survival of gastric cancer. Deng J, et al. Oncotarget, 2014 May 30. PMID 24833402, Free PMC Article

See all (26) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. E3 ubiquitin ligase RNF180 prevents excessive PCDH10 methylation to suppress the proliferation and metastasis of gastric cancer cells by promoting ubiquitination of DNMT1.
    Title: E3 ubiquitin ligase RNF180 prevents excessive PCDH10 methylation to suppress the proliferation and metastasis of gastric cancer cells by promoting ubiquitination of DNMT1.
  2. DNMT3A-mediated silence in ADAMTS9 expression is restored by RNF180 to inhibit viability and motility in gastric cancer cells.
    Title: DNMT3A-mediated silence in ADAMTS9 expression is restored by RNF180 to inhibit viability and motility in gastric cancer cells.
  3. RNF180 mediates STAT3 activity by regulating the expression of RhoC via the proteasomal pathway in gastric cancer cells.
    Title: RNF180 mediates STAT3 activity by regulating the expression of RhoC via the proteasomal pathway in gastric cancer cells.
  4. relationships between RNF180 promoter methylation and gastric cancer or atrophic gastritis, and the effects of Helicobactor pylori (H.pylori) infection on RNF180 promoter methylation
    Title: Promoter methylation of RNF180 is associated with H.pylori infection and serves as a marker for gastric cancer and atrophic gastritis.
  5. The methylated status of the key CpG islands of RNF180 DNA promoter may be used to predict the variations of the malignant biological characteristics of gastric cancer cells.
    Title: Mediation of the malignant biological characteristics of gastric cancer cells by the methylated CpG islands in RNF180 DNA promoter.
  6. RNF180 is capable of inhibiting lymph node metastasis of gastric cancer by suppressing the intracellular activation of malignant molecular signals.
    Title: Clinical and experimental role of ring finger protein 180 on lymph node metastasis and survival in gastric cancer.
  7. hypermethylated CpG site count of E3 ubiquitin ligase Ring finger protein 180 promoter for evaluating the prognosis of gastric cancer was reasonable by using the direct bisulfite sequencing.
    Title: Evaluating the clinical feasibility: The direct bisulfite genomic sequencing for examination of methylated status of E3 ubiquitin ligase RNF180 DNA promoter to predict the survival of gastric cancer.
  8. We found that only few methylated CpG sites of RNF180 promoter was appropriate to predict the survival of gastric cancer
    Title: Methylation of CpG sites in RNF180 DNA promoter prediction poor survival of gastric cancer.
  9. Data indicate that the ring finger protein 180 (RNF180) and HTR1A showed association to T1D in the Swedish and Danish families.
    Title: HTR1A a novel type 1 diabetes susceptibility gene on chromosome 5p13-q13.
  10. RNF180 is a novel potential tumor suppressor in gastric carcinogenesis.
    Title: Characterization of the gene structure, functional significance, and clinical application of RNF180, a novel gene in gastric cancer.
Submit: New GeneRIF Correction See all GeneRIFs (11)

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC120326, MGC120328

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin conjugating enzyme binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in adult behavior IEA
Inferred from Electronic Annotation
more info
  
involved_in norepinephrine metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein polyubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in serotonin metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear envelope IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase RNF180
Names
RING-type E3 ubiquitin transferase RNF180
NP_001107033.1
NP_001310220.1
NP_001310221.1
NP_848627.1
XP_016864872.1
XP_016864875.1
XP_016864876.1
XP_016864877.1
XP_016864878.1
XP_047273072.1
XP_047273074.1
XP_047273075.1
XP_047273076.1
XP_047273077.1
XP_047273078.1
XP_054208421.1
XP_054208422.1
XP_054208423.1
XP_054208424.1
XP_054208425.1
XP_054208426.1
XP_054208427.1
XP_054208428.1
XP_054208429.1
XP_054208430.1
XP_054208431.1

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_001113561.2 → NP_001107033.1  E3 ubiquitin-protein ligase RNF180 isoform 1

    See identical proteins and their annotated locations for NP_001107033.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL832580, DA183707, DA809479
    Consensus CDS
    CCDS47219.1
    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1
    Related
    ENSP00000373752.4, ENST00000389100.9
    Conserved Domains (1) summary
    cd16554
    Location:431 → 474
    RING-HC_RNF180; RING finger, HC subclass, found in RING finger protein 180 (RNF180) and similar proteins

  2. NM_001323291.1 → NP_001310220.1  E3 ubiquitin-protein ligase RNF180 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC092360, AK090756, BC101279, DA183707
    UniProtKB/TrEMBL
    D6RE88

  3. NM_001323292.2 → NP_001310221.1  E3 ubiquitin-protein ligase RNF180 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC016623, AL832580, BC101397, DA183707, DA809479
    UniProtKB/Swiss-Prot
    Q86T96

  4. NM_178532.4 → NP_848627.1  E3 ubiquitin-protein ligase RNF180 isoform 2

    See identical proteins and their annotated locations for NP_848627.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks multiple 3' coding exons and differs in the 3' UTR, compared to variant 1. The resulting isoform (2) has a shorter, distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC092360, AK090756, BC101277, DA183707
    Consensus CDS
    CCDS34169.1
    UniProtKB/Swiss-Prot
    Q86T96
    Related
    ENSP00000296615.6, ENST00000296615.10

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    64165351..64372869
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047417118.1 → XP_047273074.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  2. XM_047417120.1 → XP_047273076.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  3. XM_017009388.2 → XP_016864877.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  4. XM_047417119.1 → XP_047273075.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  5. XM_017009383.2 → XP_016864872.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  6. XM_017009386.3 → XP_016864875.1  E3 ubiquitin-protein ligase RNF180 isoform X2

  7. XM_047417116.1 → XP_047273072.1  E3 ubiquitin-protein ligase RNF180 isoform X3

  8. XM_017009387.1 → XP_016864876.1  E3 ubiquitin-protein ligase RNF180 isoform X4

  9. XM_047417121.1 → XP_047273077.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  10. XM_047417122.1 → XP_047273078.1  E3 ubiquitin-protein ligase RNF180 isoform X3

  11. XM_017009389.2 → XP_016864878.1  E3 ubiquitin-protein ligase RNF180 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    64985393..65192972
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054352453.1 → XP_054208428.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  2. XM_054352450.1 → XP_054208425.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  3. XM_054352451.1 → XP_054208426.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  4. XM_054352454.1 → XP_054208429.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  5. XM_054352446.1 → XP_054208421.1  E3 ubiquitin-protein ligase RNF180 isoform X1

  6. XM_054352447.1 → XP_054208422.1  E3 ubiquitin-protein ligase RNF180 isoform X2

  7. XM_054352448.1 → XP_054208423.1  E3 ubiquitin-protein ligase RNF180 isoform X3

  8. XM_054352449.1 → XP_054208424.1  E3 ubiquitin-protein ligase RNF180 isoform X4

  9. XM_054352455.1 → XP_054208430.1  E3 ubiquitin-protein ligase RNF180 isoform X5

    UniProtKB/Swiss-Prot
    Q0JSU3, Q495A8, Q86T96, Q8NBD1

  10. XM_054352456.1 → XP_054208431.1  E3 ubiquitin-protein ligase RNF180 isoform X3

  11. XM_054352452.1 → XP_054208427.1  E3 ubiquitin-protein ligase RNF180 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86T96.2 GenPept UniProtKB/Swiss-Prot:Q86T96

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