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Jmjd1c jumonji domain containing 1C [ Mus musculus (house mouse) ]

Gene ID: 108829, updated on 2-Nov-2024

Summary

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Official Symbol
Jmjd1cprovided by MGI
Official Full Name
jumonji domain containing 1Cprovided by MGI
Primary source
MGI:MGI:1918614
See related
Ensembl:ENSMUSG00000037876 AllianceGenome:MGI:1918614
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
TRIP8; Jmjdic; 5430433L24Rik; D630035I23Rik
Summary
Predicted to enable chromatin DNA binding activity; histone H3K9 demethylase activity; and transcription coregulator activity. Acts upstream of or within epithelial cell morphogenesis; male germ-line stem cell population maintenance; and seminiferous tubule development. Predicted to be located in chromatin. Predicted to be part of histone deacetylase complex. Is expressed in several structures, including central nervous system; genitourinary system; heart; inner ear; and limb. Orthologous to human JMJD1C (jumonji domain containing 1C). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in cerebellum adult (RPKM 6.3), CNS E14 (RPKM 5.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Jmjd1c in Genome Data Viewer
Location:
10 B5.1; 10 34.85 cM
Exon count:
31
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (66932189..67092105)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (67096351..67256326)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_26976 Neighboring gene predicted gene, 53603 Neighboring gene STARR-seq mESC enhancer starr_26978 Neighboring gene VISTA enhancer mm1692 Neighboring gene STARR-seq mESC enhancer starr_26980 Neighboring gene STARR-seq mESC enhancer starr_26981 Neighboring gene predicted gene, 31763 Neighboring gene receptor accessory protein 3 Neighboring gene STARR-positive B cell enhancer mm9_chr10:66531454-66531755 Neighboring gene STARR-positive B cell enhancer ABC_E8340 Neighboring gene STARR-seq mESC enhancer starr_26991 Neighboring gene STARR-seq mESC enhancer starr_26992 Neighboring gene STARR-positive B cell enhancer ABC_E10618 Neighboring gene predicted gene, 26359 Neighboring gene STARR-seq mESC enhancer starr_26997 Neighboring gene STARR-seq mESC enhancer starr_26998 Neighboring gene nuclear receptor binding factor 2 Neighboring gene predicted gene, 46200

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. JMJD1C Ensures Mouse Embryonic Stem Cell Self-Renewal and Somatic Cell Reprogramming through Controlling MicroRNA Expression. Xiao F, et al. Stem Cell Reports, 2017 Sep 12. PMID 28826851, Free PMC Article
  2. Depletion of Jmjd1c impairs adipogenesis in murine 3T3-L1 cells. Buerger F, et al. Biochim Biophys Acta Mol Basis Dis, 2017 Jul. PMID 28501567
  3. JMJD1C, a JmjC domain-containing protein, is required for long-term maintenance of male germ cells in mice. Kuroki S, et al. Biol Reprod, 2013 Oct. PMID 24006281
  4. shRNA screening identifies JMJD1C as being required for leukemia maintenance. Sroczynska P, et al. Blood, 2014 Mar 20. PMID 24501218
  5. MLL-AF9- and HOXA9-mediated acute myeloid leukemia stem cell self-renewal requires JMJD1C. Zhu N, et al. J Clin Invest, 2016 Mar 1. PMID 26878175, Free PMC Article

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. JMJD1C promotes lipogenesis to increase hepatic and plasma triglyceride levels, showing its role in metabolic adaption for activation of the lipogenic program in response to feeding/insulin, and its contribution to development of hepatosteatosis resulting in insulin resistance.
    Title: Histone demethylase JMJD1C is phosphorylated by mTOR to activate de novo lipogenesis.
  2. Findings support the conclusion that Jmjd1c is dispensable for a Jak2V617F-driven myeloproliferative disease. Also, the strong embryonic Jmjd1c expression in developing muscle tissues suggests additional roles for JMJD1C in organs besides the hematopoietic system.
    Title: Jmjd1c is dispensable for healthy adult hematopoiesis and Jak2V617F-driven myeloproliferative disease initiation in mice.
  3. data suggest that Jmjd1c may participate in mitotic clonal expansion and the activation of the adipogenic transcription program during the induction phase of adipocyte differentiation in 3T3-L1 cells.
    Title: Depletion of Jmjd1c impairs adipogenesis in murine 3T3-L1 cells.
  4. JMJD1C ensures efficient generation and maintenance of induced pluripotent stem cells, at least partially through controlling the expression of microRNAs.
    Title: JMJD1C Ensures Mouse Embryonic Stem Cell Self-Renewal and Somatic Cell Reprogramming through Controlling MicroRNA Expression.
  5. These results indicate that JMJD1C has multiple functions during spermatogenesis through interactions with different partners during the spermatogenic stages
    Title: JMJD1C Exhibits Multiple Functions in Epigenetic Regulation during Spermatogenesis.
  6. JMJD1C is an important mediator of MLL-AF9- and HOXA9-driven leukemia stem cell function that is largely dispensable for hematopoietic stem cells function.
    Title: MLL-AF9- and HOXA9-mediated acute myeloid leukemia stem cell self-renewal requires JMJD1C.
  7. Data suggest that Jmjd1c is most abundantly expressed in testis in undifferentiated spermatogonia; testes of mutant mice deficient in Jmjd1c frequently contain abnormal seminiferous tubules lacking developmentally immature germ cells.
    Title: JMJD1C, a JmjC domain-containing protein, is required for long-term maintenance of male germ cells in mice.
  8. Depletion of Jmjd1c impairs growth and colony formation of MLL-AF9 cells in vitro as well as establishment of leukemia after transplantation.
    Title: shRNA screening identifies JMJD1C as being required for leukemia maintenance.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (4)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables chromatin DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K9 demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K9 demethylase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within epithelial cell morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within maintenance of cell number IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within male germ-line stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within male gonad development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within reproductive senescence IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within seminiferous tubule development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
probable JmjC domain-containing histone demethylation protein 2C
Names
jumonji domain-containing protein 1C
NP_001229325.1
NP_997104.2
XP_006513098.1
XP_006513100.1
XP_006513103.1
XP_006513104.1
XP_006513105.1
XP_006513107.1
XP_030100665.1
XP_030100667.1
XP_030100670.1
XP_030100671.1
XP_030100672.1
XP_030100674.1
XP_030100677.1
XP_036011379.1
XP_036011380.1
XP_036011381.1
XP_036011382.1
XP_036011383.1
XP_036011384.1
XP_036011385.1
XP_036011386.1
XP_036011387.1
XP_036011388.1

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_001242396.1 → NP_001229325.1  probable JmjC domain-containing histone demethylation protein 2C isoform 2

    See identical proteins and their annotated locations for NP_001229325.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus and lacks a single internal aa compared to isoform 1.
    Source sequence(s)
    AC155712, AC156272, AK082106, AK085500, BC054559, BP761712, CD578529
    Consensus CDS
    CCDS56708.1
    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Related
    ENSMUSP00000133700.2, ENSMUST00000173689.8
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  2. NM_207221.3 → NP_997104.2  probable JmjC domain-containing histone demethylation protein 2C isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC155712, AC156272
    Consensus CDS
    CCDS56707.1
    UniProtKB/TrEMBL
    A0A0A0MQ98
    Related
    ENSMUSP00000056227.10, ENSMUST00000051446.16
    Conserved Domains (2) summary
    smart00558
    Location:2286 → 2340
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cl21464
    Location:2372 → 2471
    cupin_like; Conserved domain found in cupin and related proteins

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    66932189..67092105
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036155486.1 → XP_036011379.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  2. XM_036155494.1 → XP_036011387.1  probable JmjC domain-containing histone demethylation protein 2C isoform X7

    Conserved Domains (3) summary
    smart00558
    Location:2000 → 2054
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:779 → 973
    AvrE; Pathogenicity factor
    cl40423
    Location:2086 → 2185
    cupin_RmlC-like; RmlC-like cupin superfamily

  3. XM_036155489.1 → XP_036011382.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  4. XM_036155492.1 → XP_036011385.1  probable JmjC domain-containing histone demethylation protein 2C isoform X6

    Conserved Domains (3) summary
    smart00558
    Location:2038 → 2092
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:817 → 1011
    AvrE; Pathogenicity factor
    cl40423
    Location:2124 → 2223
    cupin_RmlC-like; RmlC-like cupin superfamily

  5. XM_036155487.1 → XP_036011380.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  6. XM_036155490.1 → XP_036011383.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  7. XM_036155493.1 → XP_036011386.1  probable JmjC domain-containing histone demethylation protein 2C isoform X6

    Conserved Domains (3) summary
    smart00558
    Location:2038 → 2092
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:817 → 1011
    AvrE; Pathogenicity factor
    cl40423
    Location:2124 → 2223
    cupin_RmlC-like; RmlC-like cupin superfamily

  8. XM_030244805.2 → XP_030100665.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  9. XM_030244817.2 → XP_030100677.1  probable JmjC domain-containing histone demethylation protein 2C isoform X7

    Conserved Domains (3) summary
    smart00558
    Location:2000 → 2054
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:779 → 973
    AvrE; Pathogenicity factor
    cl40423
    Location:2086 → 2185
    cupin_RmlC-like; RmlC-like cupin superfamily

  10. XM_030244810.2 → XP_030100670.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  11. XM_030244814.2 → XP_030100674.1  probable JmjC domain-containing histone demethylation protein 2C isoform X6

    Conserved Domains (3) summary
    smart00558
    Location:2038 → 2092
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:817 → 1011
    AvrE; Pathogenicity factor
    cl40423
    Location:2124 → 2223
    cupin_RmlC-like; RmlC-like cupin superfamily

  12. XM_006513042.5 → XP_006513105.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    See identical proteins and their annotated locations for XP_006513105.1

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  13. XM_006513044.5 → XP_006513107.1  probable JmjC domain-containing histone demethylation protein 2C isoform X7

    Conserved Domains (3) summary
    smart00558
    Location:2000 → 2054
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:779 → 973
    AvrE; Pathogenicity factor
    cl40423
    Location:2086 → 2185
    cupin_RmlC-like; RmlC-like cupin superfamily

  14. XM_030244807.2 → XP_030100667.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  15. XM_030244812.2 → XP_030100672.1  probable JmjC domain-containing histone demethylation protein 2C isoform X6

    Conserved Domains (3) summary
    smart00558
    Location:2038 → 2092
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:817 → 1011
    AvrE; Pathogenicity factor
    cl40423
    Location:2124 → 2223
    cupin_RmlC-like; RmlC-like cupin superfamily

  16. XM_006513041.4 → XP_006513104.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    See identical proteins and their annotated locations for XP_006513104.1

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  17. XM_036155491.1 → XP_036011384.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  18. XM_036155488.1 → XP_036011381.1  probable JmjC domain-containing histone demethylation protein 2C isoform X4

    UniProtKB/Swiss-Prot
    E9QMM8, Q69ZK6, Q6NV48, Q8BUF5, Q8C4I5, Q8C5Q9
    Conserved Domains (3) summary
    smart00558
    Location:2106 → 2160
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:885 → 1079
    AvrE; Pathogenicity factor
    cl40423
    Location:2192 → 2291
    cupin_RmlC-like; RmlC-like cupin superfamily

  19. XM_006513035.4 → XP_006513098.1  probable JmjC domain-containing histone demethylation protein 2C isoform X1

    UniProtKB/TrEMBL
    G3UZM1
    Related
    ENSMUSP00000134551.2, ENSMUST00000174408.8
    Conserved Domains (3) summary
    smart00558
    Location:2287 → 2341
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:1066 → 1260
    AvrE; Pathogenicity factor
    cl21464
    Location:2373 → 2472
    cupin_like; Conserved domain found in cupin and related proteins

  20. XM_006513040.4 → XP_006513103.1  probable JmjC domain-containing histone demethylation protein 2C isoform X3

    Conserved Domains (3) summary
    smart00558
    Location:2219 → 2273
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:998 → 1192
    AvrE; Pathogenicity factor
    cl21464
    Location:2305 → 2404
    cupin_like; Conserved domain found in cupin and related proteins

  21. XM_006513037.4 → XP_006513100.1  probable JmjC domain-containing histone demethylation protein 2C isoform X2

    Conserved Domains (3) summary
    smart00558
    Location:2249 → 2303
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:1028 → 1222
    AvrE; Pathogenicity factor
    cl21464
    Location:2335 → 2434
    cupin_like; Conserved domain found in cupin and related proteins

  22. XM_030244811.1 → XP_030100671.1  probable JmjC domain-containing histone demethylation protein 2C isoform X5

    Conserved Domains (3) summary
    smart00558
    Location:2052 → 2106
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:831 → 1025
    AvrE; Pathogenicity factor
    cl40423
    Location:2138 → 2237
    cupin_RmlC-like; RmlC-like cupin superfamily

  23. XM_036155495.1 → XP_036011388.1  probable JmjC domain-containing histone demethylation protein 2C isoform X7

    Conserved Domains (3) summary
    smart00558
    Location:2000 → 2054
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    pfam11725
    Location:779 → 973
    AvrE; Pathogenicity factor
    cl40423
    Location:2086 → 2185
    cupin_RmlC-like; RmlC-like cupin superfamily

RNA

  1. XR_001779409.2 RNA Sequence

  2. XR_001779410.2 RNA Sequence

  3. XR_001779408.2 RNA Sequence

  4. XR_004936032.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q69ZK6.3 GenPept UniProtKB/Swiss-Prot:Q69ZK6

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