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    Mkrn1 makorin, ring finger protein, 1 [ Mus musculus (house mouse) ]

    Gene ID: 54484, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Mkrn1provided by MGI
    Official Full Name
    makorin, ring finger protein, 1provided by MGI
    Primary source
    MGI:MGI:1859353
    See related
    Ensembl:ENSMUSG00000029922 AllianceGenome:MGI:1859353
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    RFP
    Summary
    Enables chromatin binding activity. Acts upstream of or within cellular response to leukemia inhibitory factor. Is expressed in several structures, including early conceptus; genitourinary system; liver; nervous system; and spleen. Orthologous to human MKRN1 (makorin ring finger protein 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 72.2), liver E14.5 (RPKM 30.0) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Mkrn1 in Genome Data Viewer
    Location:
    6 B1; 6 18.18 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (39374738..39400480, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (39397804..39423299, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_15639 Neighboring gene solute carrier family 37 (glycerol-3-phosphate transporter), member 3 Neighboring gene STARR-positive B cell enhancer ABC_E4822 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:39329756-39330023 Neighboring gene RAB19, member RAS oncogene family Neighboring gene STARR-seq mESC enhancer starr_15648 Neighboring gene STARR-seq mESC enhancer starr_15650 Neighboring gene predicted gene 10244 Neighboring gene STARR-seq mESC enhancer starr_15653 Neighboring gene predicted gene, 25402 Neighboring gene STARR-seq mESC enhancer starr_15655 Neighboring gene DENN domain containing 2A Neighboring gene predicted gene, 52860 Neighboring gene STARR-seq mESC enhancer starr_15661 Neighboring gene RIKEN cDNA 8030453O22 gene Neighboring gene VISTA enhancer mm1321

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Loss of the E3 ubiquitin ligase MKRN1 represses diet-induced metabolic syndrome through AMPK activation. Lee MS, et al. Nat Commun, 2018 Aug 24. PMID 30143610, Free PMC Article
    2. Suppression of PPARγ through MKRN1-mediated ubiquitination and degradation prevents adipocyte differentiation. Kim JH, et al. Cell Death Differ, 2014 Apr. PMID 24336050, Free PMC Article
    3. The putatively functional Mkrn1-p1 pseudogene is neither expressed nor imprinted, nor does it regulate its source gene in trans. Gray TA, et al. Proc Natl Acad Sci U S A, 2006 Aug 8. PMID 16882727, Free PMC Article
    4. Identification of Makorin 1 as a novel SEREX antigen of esophageal squamous cell carcinoma. Shimada H, et al. BMC Cancer, 2009 Jul 15. PMID 19604354, Free PMC Article
    5. An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene. Hirotsune S, et al. Nature, 2003 May 1. PMID 12721631

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Systems-level analyses support a role for the E3 ligase MKRN1 as a ribonucleoprotein within the embryonic stem cell gene regulatory network
      Title: Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network.
    2. MKRN1 is an elusive PPARgamma E3 ligase that targets PPARgamma for proteasomal degradation by ubiquitin-dependent pathways, and further depict MKRN1 as a novel target for diseases involving PPARgamma.
      Title: Suppression of PPARγ through MKRN1-mediated ubiquitination and degradation prevents adipocyte differentiation.
    3. Makorin 1 is a novel SEREX antigen of esophageal squamous cell carcinoma
      Title: Identification of Makorin 1 as a novel SEREX antigen of esophageal squamous cell carcinoma.
    4. Mkrn1-p1 is not imprinted, and neither it or its source Mkrn1 gene relates to the original imprinted transgene phenotype
      Title: The putatively functional Mkrn1-p1 pseudogene is neither expressed nor imprinted, nor does it regulate its source gene in trans.
    5. Mutagenesis reduces transcription of Makorin1-pseudogene, resulting in destabilization of Makorin1 mRNA in trans by way of a cis-acting RNA decay element within the 5' region of Makorin1 that is homologous between Makorin1 and Makorin1-pseudogene
      Title: An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene.
    6. analysis of processed pseudogenes that stabilize functional Makorin1 mRNAs in mice, primates and other mammals
      Title: Origin and evolution of processed pseudogenes that stabilize functional Makorin1 mRNAs in mice, primates and other mammals.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1)  1 citation
    • Targeted (1) 

    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 MGI

    Function Evidence Code Pubs
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in protein polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase makorin-1
    Names
    RING-type E3 ubiquitin transferase makorin-1
    NP_001298038.1
    NP_001398164.1
    NP_001398165.1
    NP_001398166.1
    NP_001398167.1
    NP_001398168.1
    NP_001398169.1
    NP_001398170.1
    NP_001398171.1
    NP_001398172.1
    NP_001398173.1
    NP_001398174.1
    NP_001398175.1
    NP_001398176.1
    NP_001398177.1
    NP_061280.2
    XP_017177172.1

    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_001311109.2 → NP_001298038.1  E3 ubiquitin-protein ligase makorin-1 isoform 2

      See identical proteins and their annotated locations for NP_001298038.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 2, which has a shorter N-terminus, compared to isoform 2.
      Source sequence(s)
      AC153624
      Consensus CDS
      CCDS80528.1
      UniProtKB/Swiss-Prot
      Q9QXP6
      UniProtKB/TrEMBL
      E9QAG7
      Related
      ENSMUSP00000110471.2, ENSMUST00000114823.8
      Conserved Domains (4) summary
      PHA03096
      Location:157 → 306
      PHA03096; p28-like protein; Provisional
      cd16730
      Location:214 → 274
      RING-HC_MKRN1_3; RING finger, HC subclass, found in makorin-1 (MKRN1), makorin-3 (MKRN3), and similar proteins
      pfam15815
      Location:336 → 415
      MKRN1_C; E3 ubiquitin-protein ligase makorin-1, C-terminal
      pfam18345
      Location:26 → 44
      zf_CCCH_4; Zinc finger domain

    2. NM_001411235.1 → NP_001398164.1  E3 ubiquitin-protein ligase makorin-1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC153624

    3. NM_001411236.1 → NP_001398165.1  E3 ubiquitin-protein ligase makorin-1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      E9QAG7

    4. NM_001411237.1 → NP_001398166.1  E3 ubiquitin-protein ligase makorin-1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      E9QAG7

    5. NM_001411238.1 → NP_001398167.1  E3 ubiquitin-protein ligase makorin-1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      E9QAG7

    6. NM_001411239.1 → NP_001398168.1  E3 ubiquitin-protein ligase makorin-1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      E9QAG7

    7. NM_001411240.1 → NP_001398169.1  E3 ubiquitin-protein ligase makorin-1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC153624

    8. NM_001411241.1 → NP_001398170.1  E3 ubiquitin-protein ligase makorin-1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      Q99LD7
      Related
      ENSMUSP00000084244.3, ENSMUST00000051671.11

    9. NM_001411242.1 → NP_001398171.1  E3 ubiquitin-protein ligase makorin-1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      Q9DB86

    10. NM_001411243.1 → NP_001398172.1  E3 ubiquitin-protein ligase makorin-1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      Q9DB86

    11. NM_001411244.1 → NP_001398173.1  E3 ubiquitin-protein ligase makorin-1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      Q9DB86

    12. NM_001411245.1 → NP_001398174.1  E3 ubiquitin-protein ligase makorin-1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC153624
      UniProtKB/TrEMBL
      Q9DB86

    13. NM_001411246.1 → NP_001398175.1  E3 ubiquitin-protein ligase makorin-1 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC153624

    14. NM_001411247.1 → NP_001398176.1  E3 ubiquitin-protein ligase makorin-1 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC153624

    15. NM_001411248.1 → NP_001398177.1  E3 ubiquitin-protein ligase makorin-1 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC153624

    16. NM_018810.3 → NP_061280.2  E3 ubiquitin-protein ligase makorin-1 isoform 1

      See identical proteins and their annotated locations for NP_061280.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC153624
      Consensus CDS
      CCDS20022.1
      UniProtKB/Swiss-Prot
      Q9QXP6
      UniProtKB/TrEMBL
      Q8C5V4
      Related
      ENSMUSP00000031985.7, ENSMUST00000031985.13
      Conserved Domains (5) summary
      PHA03096
      Location:221 → 370
      PHA03096; p28-like protein; Provisional
      cd16730
      Location:278 → 338
      RING-HC_MKRN1_3; RING finger, HC subclass, found in makorin-1 (MKRN1), makorin-3 (MKRN3), and similar proteins
      pfam15815
      Location:400 → 479
      MKRN1_C; E3 ubiquitin-protein ligase makorin-1, C-terminal
      pfam18044
      Location:59 → 80
      zf-CCCH_4; CCCH-type zinc finger
      pfam18345
      Location:90 → 108
      zf_CCCH_4; Zinc finger domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      39374738..39400480 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017321683.2 → XP_017177172.1  E3 ubiquitin-protein ligase makorin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q9QXP6
      UniProtKB/TrEMBL
      Q8C5V4
      Conserved Domains (5) summary
      PHA03096
      Location:221 → 370
      PHA03096; p28-like protein; Provisional
      cd16730
      Location:278 → 338
      RING-HC_MKRN1_3; RING finger, HC subclass, found in makorin-1 (MKRN1), makorin-3 (MKRN3), and similar proteins
      pfam15815
      Location:400 → 479
      MKRN1_C; E3 ubiquitin-protein ligase makorin-1, C-terminal
      pfam18044
      Location:59 → 80
      zf-CCCH_4; CCCH-type zinc finger
      pfam18345
      Location:90 → 108
      zf_CCCH_4; Zinc finger domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9QXP6.1 GenPept UniProtKB/Swiss-Prot:Q9QXP6

    Gene LinkOut

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

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