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

Gene ID: 285671, updated on 10-Dec-2019

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
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
Expression
Broad expression in thyroid (RPKM 3.9), brain (RPKM 2.6) and 23 other tissues See more
Orthologs
mouse all

Genomic context

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See RNF180 in Genome Data Viewer
Location:
5q12.3
Exon count:
13
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (64165311..64372879)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (63461671..63668704)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378999 Neighboring gene 5-hydroxytryptamine receptor 1A 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 (20) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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.
  7. 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.
  8. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

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
metal ion binding IEA
Inferred from Electronic Annotation
more info
  
ubiquitin conjugating enzyme binding IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Process Evidence Code Pubs
adult behavior IEA
Inferred from Electronic Annotation
more info
  
norepinephrine metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
positive regulation of proteasomal ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
positive regulation of protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
protein polyubiquitination IEA
Inferred from Electronic Annotation
more info
  
regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
  
serotonin metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
  
intrinsic component of endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
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_016864873.1
XP_016864874.1
XP_016864875.1
XP_016864876.1
XP_016864877.1
XP_016864878.1

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
    Q86T96
    Related
    ENSP00000373752.4, ENST00000389100.9
    Conserved Domains (1) summary
    cd00162
    Location:432 → 477
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

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

    Status: VALIDATED

    Source sequence(s)
    AC092360, AK090756, BC101279, DA183707
    UniProtKB/Swiss-Prot
    Q86T96

  3. NM_001323292.1 → 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: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    64165311..64372879
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

  2. XM_017009384.1 → XP_016864873.1  E3 ubiquitin-protein ligase RNF180 isoform X2

  3. XM_017009385.1 → XP_016864874.1  E3 ubiquitin-protein ligase RNF180 isoform X3

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

  5. XM_017009386.2 → XP_016864875.1  E3 ubiquitin-protein ligase RNF180 isoform X4

  6. XM_017009387.1 → XP_016864876.1  E3 ubiquitin-protein ligase RNF180 isoform X5

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

RNA

  1. XR_001742057.1 RNA Sequence

  2. XR_001742056.2 RNA Sequence

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

Gene LinkOut

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

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