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

Gene ID: 54484, updated on 2-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 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

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