U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Cxxc5 CXXC finger protein 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291670, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Cxxc5provided by RGD
    Official Full Name
    CXXC finger protein 5provided by RGD
    Primary source
    RGD:1359466
    See related
    EnsemblRapid:ENSRNOG00000032878 AllianceGenome:RGD:1359466
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA-binding transcription factor binding activity; methyl-CpG binding activity; and zinc ion binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; positive regulation of canonical NF-kappaB signal transduction; and regulation of generation of precursor metabolites and energy. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Orthologous to human CXXC5 (CXXC finger protein 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 232.3), Thymus (RPKM 143.2) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Cxxc5 in Genome Data Viewer
    Location:
    18p11
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (27701650..27732633)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (27427591..27458579)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (28626386..28656916)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120098144 Neighboring gene ubiquitin-conjugating enzyme E2D 2 Neighboring gene U6atac minor spliceosomal RNA Neighboring gene uncharacterized LOC134482928 Neighboring gene ribosomal protein S16, pseudogene 2 Neighboring gene uncharacterized LOC134483007 Neighboring gene uncharacterized LOC134483008

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CXXC5 is a novel BMP4-regulated modulator of Wnt signaling in neural stem cells. Andersson T, et al. J Biol Chem, 2009 Feb 6. PMID 19001364
    2. Oxygen-dependent expression of cytochrome c oxidase subunit 4-2 gene expression is mediated by transcription factors RBPJ, CXXC5 and CHCHD2. Aras S, et al. Nucleic Acids Res, 2013 Feb 1. PMID 23303788, Free PMC Article
    3. DNA Sequence Recognition of Human CXXC Domains and Their Structural Determinants. Xu C, et al. Structure, 2018 Jan 2. PMID 29276034
    4. Large-scale identification and characterization of human genes that activate NF-kappaB and MAPK signaling pathways. Matsuda A, et al. Oncogene, 2003 May 22. PMID 12761501
    5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC94398

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methyl-CpG binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methyl-CpG binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    involved_in regulation of generation of precursor metabolites and energy ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    CXXC-type zinc finger protein 5
    Names
    CXXC finger 5

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001007628.2 → NP_001007629.1  CXXC-type zinc finger protein 5

      See identical proteins and their annotated locations for NP_001007629.1

      Status: VALIDATED

      Source sequence(s)
      BC083622, BE114271, DV723039
      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086036.1 Reference GRCr8

      Range
      27701650..27732633
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039096716.2 → XP_038952644.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    2. XM_039096715.2 → XP_038952643.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    3. XM_039096713.2 → XP_038952641.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Related
      ENSRNOP00000042976.2, ENSRNOT00000045795.4
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    4. XM_039096714.2 → XP_038952642.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    5. XM_039096712.2 → XP_038952640.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    6. XM_039096711.1 → XP_038952639.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    7. XM_017600904.3 → XP_017456393.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    8. XM_017600900.3 → XP_017456389.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    9. XM_017600902.3 → XP_017456391.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    10. XM_063277216.1 → XP_063133286.1  CXXC-type zinc finger protein 5 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AID9
      Related
      ENSRNOP00000094752.1, ENSRNOT00000104184.2

    11. XM_063277215.1 → XP_063133285.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8

    12. XM_017600903.3 → XP_017456392.1  CXXC-type zinc finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      Q5XIQ3
      UniProtKB/TrEMBL
      A6J2Z8
      Conserved Domains (1) summary
      pfam02008
      Location:249 → 290
      zf-CXXC; CXXC zinc finger domain

    RNA

    1. XR_005496008.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIQ3.1 GenPept UniProtKB/Swiss-Prot:Q5XIQ3

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools