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    RNF212 ring finger protein 212 [ Homo sapiens (human) ]

    Gene ID: 285498, updated on 10-Dec-2024

    Summary

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    Official Symbol
    RNF212provided by HGNC
    Official Full Name
    ring finger protein 212provided by HGNC
    Primary source
    HGNC:HGNC:27729
    See related
    Ensembl:ENSG00000178222 MIM:612041; AllianceGenome:HGNC:27729
    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
    ZHP3; SPGF62
    Summary
    This gene encodes a RING finger protein that may function as a ubiquitin ligase. The encoded protein may be involved in meiotic recombination. This gene is located within a linkage disequilibrium block and polymorphisms in this gene may influence recombination rates. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Oct 2010]
    Expression
    Broad expression in ovary (RPKM 1.7), testis (RPKM 1.5) and 20 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See RNF212 in Genome Data Viewer
    Location:
    4p16.3
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (1056251..1113710, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (1055136..1112433, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (1050039..1107352, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1003737-1004369 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15120 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15121 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1007938-1008741 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1008742-1009544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1011927-1012796 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1019533-1020034 Neighboring gene fibroblast growth factor receptor like 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1020035-1020534 Neighboring gene uncharacterized LOC105374343 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1030079-1030899 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:1032665-1033598 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:1035128-1035326 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:1035707-1035888 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1046553-1047422 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1085059-1086038 Neighboring gene protein phosphatase 2 regulatory subunit Balpha Neighboring gene uncharacterized LOC105374344 Neighboring gene nascent polypeptide-associated complex subunit alpha, muscle-specific form-like Neighboring gene small nucleolar RNA SNORA48 Neighboring gene transmembrane p24 trafficking protein 11, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15122 Neighboring gene hornerin-like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1143546-1144046 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:1144047-1144547

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Association of the common SNPs in RNF212, STAG3 and RFX2 gene with male infertility with azoospermia in Chinese population. Yu CH, et al. Eur J Obstet Gynecol Reprod Biol, 2018 Feb. PMID 29277047
    2. Sequencing of a 'mouse azoospermia' gene panel in azoospermic men: identification of RNF212 and STAG3 mutations as novel genetic causes of meiotic arrest. Riera-Escamilla A, et al. Hum Reprod, 2019 Jun 4. PMID 31125047
    3. Genetic analysis of variation in human meiotic recombination. Chowdhury R, et al. PLoS Genet, 2009 Sep. PMID 19763160, Free PMC Article
    4. Sequence variants in the RNF212 gene associate with genome-wide recombination rate. Kong A, et al. Science, 2008 Mar 7. PMID 18239089
    5. Targeted gene knockout reveals a role in meiotic recombination for ZHP-3, a Zip3-related protein in Caenorhabditis elegans. Jantsch V, et al. Mol Cell Biol, 2004 Sep. PMID 15340062, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. For the first time, study reports biallelic variants in STAG3, in one sporadic patient, and a homozygous RNF212 variant, in the two brothers, as the genetic cause of non-obstructive azoospermia. Meiotic studies allowed the detection of the functional consequences of the mutations and provided information on the role of STAG3 and RNF212 in human male meiosis.
      Title: Sequencing of a 'mouse azoospermia' gene panel in azoospermic men: identification of RNF212 and STAG3 mutations as novel genetic causes of meiotic arrest.
    2. The polymorphism of SNP rs4045481 in RNF212 gene might be associated with azoospermia and genotype CC of this SNP may be a risk factor of azoospermia.
      Title: Association of the common SNPs in RNF212, STAG3 and RFX2 gene with male infertility with azoospermia in Chinese population.
    3. This paper describes a partial transcript of the human RNF212 gene.
      Title: Targeted gene knockout reveals a role in meiotic recombination for ZHP-3, a Zip3-related protein in Caenorhabditis elegans.
    4. Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
      Title: Sequence variants in the RNF212 gene associate with genome-wide recombination rate.
    5. genome search identified sequence variants in the 4p16.3 region correlated with recombination rate in males & females; variants are located in the RNF212 gene, a putative ortholog of ZHP-3 gene essential for recombination & chiasma formation in C elegans
      Title: Sequence variants in the RNF212 gene associate with genome-wide recombination rate.
    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

    Associated conditions

    Description Tests
    Recombination rate quantitative trait locus 1
    MedGen: C2677576 OMIM: 612042 GeneReviews: Not available
    		Compare labs
    Spermatogenic failure 62
    MedGen: C5562049 OMIM: 619673 GeneReviews: Not available
    		not available

    EBI GWAS Catalog

    Description
    Sequence variants in the RNF212 gene associate with genome-wide recombination rate.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ38841, FLJ42587, MGC120227, MGC120228

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables SUMO transferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chiasma assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in homologous chromosome pairing at meiosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in meiotic gene conversion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein sumoylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in reciprocal meiotic recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in synaptonemal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    colocalizes_with synaptonemal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    probable E3 SUMO-protein ligase RNF212
    Names
    probable E3 SUMO-protein transferase RNF212

    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_027812.2 RefSeqGene

      Range
      5231..47317
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001131034.4 → NP_001124506.1  probable E3 SUMO-protein ligase RNF212 isoform a

      See identical proteins and their annotated locations for NP_001124506.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AC019103, AK096160, BC050356, BC101260, BG701603
      Consensus CDS
      CCDS46996.1
      UniProtKB/Swiss-Prot
      C9J8N0, Q495C0, Q495C1, Q86W82, Q8IY99, Q8N8U7
      Related
      ENSP00000389709.2, ENST00000433731.7
      Conserved Domains (1) summary
      cl17238
      Location:4 → 50
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    2. NM_001193318.3 → NP_001180247.1  probable E3 SUMO-protein ligase RNF212 isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks multiple 3' exons but has an alternate 3' exon, compared to variant 1. The resulting isoform (c) is shorter and has a distinct C-terminus compared to isoform a.
      Source sequence(s)
      AC019103, AK096160, BC036250, BG701603
      Consensus CDS
      CCDS54704.1
      UniProtKB/Swiss-Prot
      Q495C1
      Related
      ENSP00000327481.5, ENST00000333673.5
      Conserved Domains (1) summary
      pfam14634
      Location:6 → 47
      zf-RING_5; zinc-RING finger domain

    3. NM_001366918.1 → NP_001353847.1  probable E3 SUMO-protein ligase RNF212 isoform d

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    4. NM_001366919.1 → NP_001353848.1  probable E3 SUMO-protein ligase RNF212 isoform e

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535
      Consensus CDS
      CCDS93460.1
      UniProtKB/TrEMBL
      A0A8V8TN20
      Related
      ENSP00000513634.1, ENST00000698262.1
      Conserved Domains (1) summary
      cd16746
      Location:4 → 50
      RING-HC_RNF212; RING finger, HC subclass, found in RING finger protein 212 (RNF212) and similar proteins

    5. NM_194439.5 → NP_919420.1  probable E3 SUMO-protein ligase RNF212 isoform b

      See identical proteins and their annotated locations for NP_919420.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1, that results in a frameshift. It encodes isoform b which has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AC019103, AK096160, BC050356, BG701603
      Consensus CDS
      CCDS3345.1
      UniProtKB/Swiss-Prot
      Q495C1
      Related
      ENSP00000372428.5, ENST00000382968.9
      Conserved Domains (1) summary
      pfam14634
      Location:6 → 47
      zf-RING_5; zinc-RING finger domain

    RNA

    1. NR_159497.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    2. NR_159498.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    3. NR_159499.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    4. NR_159500.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    5. NR_159501.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    6. NR_159502.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    7. NR_159503.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    8. NR_159504.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    9. NR_159505.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC019103, AC092535

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      1056251..1113710 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011513446.2 → XP_011511748.1  probable E3 SUMO-protein ligase RNF212 isoform X9

      Conserved Domains (1) summary
      pfam14634
      Location:6 → 47
      zf-RING_5; zinc-RING finger domain

    2. XM_047450083.1 → XP_047306039.1  probable E3 SUMO-protein ligase RNF212 isoform X3

    3. XM_047450082.1 → XP_047306038.1  probable E3 SUMO-protein ligase RNF212 isoform X1

    4. XM_047450084.1 → XP_047306040.1  probable E3 SUMO-protein ligase RNF212 isoform X4

    5. XM_017008040.2 → XP_016863529.1  probable E3 SUMO-protein ligase RNF212 isoform X2

    6. XM_011513445.3 → XP_011511747.1  probable E3 SUMO-protein ligase RNF212 isoform X6

      Conserved Domains (1) summary
      pfam14634
      Location:6 → 47
      zf-RING_5; zinc-RING finger domain

    7. XM_047450086.1 → XP_047306042.1  probable E3 SUMO-protein ligase RNF212 isoform X7

    8. XM_011513439.2 → XP_011511741.1  probable E3 SUMO-protein ligase RNF212 isoform X2

      See identical proteins and their annotated locations for XP_011511741.1

    9. XM_047450085.1 → XP_047306041.1  probable E3 SUMO-protein ligase RNF212 isoform X5

    10. XM_047450087.1 → XP_047306043.1  probable E3 SUMO-protein ligase RNF212 isoform X8

    11. XM_047450088.1 → XP_047306044.1  probable E3 SUMO-protein ligase RNF212 isoform X10

    12. XM_017008041.2 → XP_016863530.1  probable E3 SUMO-protein ligase RNF212 isoform X11

    RNA

    1. XR_007096392.1 RNA Sequence

    2. XR_924937.2 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      1055136..1112433 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054349724.1 → XP_054205699.1  probable E3 SUMO-protein ligase RNF212 isoform X9

    2. XM_054349718.1 → XP_054205693.1  probable E3 SUMO-protein ligase RNF212 isoform X3

    3. XM_054349715.1 → XP_054205690.1  probable E3 SUMO-protein ligase RNF212 isoform X1

    4. XM_054349719.1 → XP_054205694.1  probable E3 SUMO-protein ligase RNF212 isoform X4

    5. XM_054349717.1 → XP_054205692.1  probable E3 SUMO-protein ligase RNF212 isoform X2

    6. XM_054349721.1 → XP_054205696.1  probable E3 SUMO-protein ligase RNF212 isoform X6

    7. XM_054349722.1 → XP_054205697.1  probable E3 SUMO-protein ligase RNF212 isoform X7

    8. XM_054349716.1 → XP_054205691.1  probable E3 SUMO-protein ligase RNF212 isoform X2

    9. XM_054349720.1 → XP_054205695.1  probable E3 SUMO-protein ligase RNF212 isoform X5

    10. XM_054349723.1 → XP_054205698.1  probable E3 SUMO-protein ligase RNF212 isoform X8

    11. XM_054349725.1 → XP_054205700.1  probable E3 SUMO-protein ligase RNF212 isoform X10

    RNA

    1. XR_008486966.1 RNA Sequence

    2. XR_008486965.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q495C1.1 GenPept UniProtKB/Swiss-Prot:Q495C1

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