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    Zcchc2 zinc finger CCHC-type containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304695, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Zcchc2provided by RGD
    Official Full Name
    zinc finger CCHC-type containing 2provided by RGD
    Primary source
    RGD:1310626
    See related
    EnsemblRapid:ENSRNOG00000002882 AllianceGenome:RGD:1310626
    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
    Also known as
    Tnfrsf11a
    Summary
    Predicted to enable nucleic acid binding activity; phosphatidylinositol binding activity; and zinc ion binding activity. Predicted to be located in cytoplasm. Orthologous to human ZCCHC2 (zinc finger CCHC-type containing 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 136.1), Lung (RPKM 99.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zcchc2 in Genome Data Viewer
    Location:
    13p11
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (22621275..22708232)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (22118677..22193626)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (25961762..26052472)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108352516 Neighboring gene uncharacterized LOC102550337 Neighboring gene uncharacterized LOC102550524 Neighboring gene uncharacterized LOC134481472 Neighboring gene PH domain and leucine rich repeat protein phosphatase 1 Neighboring gene uncharacterized LOC108352518

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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    Related articles in PubMed

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC112793

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylinositol binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger CCHC domain-containing protein 2
    Names
    tumor necrosis factor receptor superfamily, member 11a

    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_001122677.4 → NP_001116149.2  zinc finger CCHC domain-containing protein 2 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A0H2UHB2, A0A8L2R9Z0
      Related
      ENSRNOP00000003870.6, ENSRNOT00000003870.10
      Conserved Domains (2) summary
      pfam00098
      Location:1124 → 1139
      zf-CCHC; Zinc knuckle
      cl02563
      Location:356 → 456
      PX_domain; The Phox Homology domain, a phosphoinositide binding module

    2. NM_001271042.1 → NP_001257971.1  zinc finger CCHC domain-containing protein 2 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains multiple differences in the coding region and its transcription extends past a splice site that is used in variant 1, resulting in a novel 3' coding region and 3' UTR compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BC100090, JAXUCZ010000013
      UniProtKB/Swiss-Prot
      Q498S6
      Conserved Domains (1) summary
      cl02563
      Location:356 → 456
      PX_domain; The Phox Homology domain, a phosphoinositide binding module

    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_086031.1 Reference GRCr8

      Range
      22621275..22708232
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063272218.1 → XP_063128288.1  zinc finger CCHC domain-containing protein 2 isoform X1

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    2. XM_063272221.1 → XP_063128291.1  zinc finger CCHC domain-containing protein 2 isoform X4

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    3. XM_039090658.2 → XP_038946586.1  zinc finger CCHC domain-containing protein 2 isoform X8

      UniProtKB/TrEMBL
      A0A8L2R9Z0
      Related
      ENSRNOP00000112673.1, ENSRNOT00000164304.1
      Conserved Domains (3) summary
      PTZ00368
      Location:1113 → 1136
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      pfam05109
      Location:682 → 1013
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl02563
      Location:356 → 456
      PX_domain; The Phox Homology domain, a phosphoinositide binding module

    4. XM_063272222.1 → XP_063128292.1  zinc finger CCHC domain-containing protein 2 isoform X5

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    5. XM_063272220.1 → XP_063128290.1  zinc finger CCHC domain-containing protein 2 isoform X3

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    6. XM_063272219.1 → XP_063128289.1  zinc finger CCHC domain-containing protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    7. XM_063272223.1 → XP_063128293.1  zinc finger CCHC domain-containing protein 2 isoform X6

      UniProtKB/TrEMBL
      A0A8L2R9Z0

    8. XM_006249626.5 → XP_006249688.1  zinc finger CCHC domain-containing protein 2 isoform X7

      See identical proteins and their annotated locations for XP_006249688.1

      UniProtKB/Swiss-Prot
      Q498S6
      UniProtKB/TrEMBL
      A0A8L2R9Z0
      Conserved Domains (2) summary
      pfam00098
      Location:1123 → 1138
      zf-CCHC; Zinc knuckle
      cl02563
      Location:356 → 456
      PX_domain; The Phox Homology domain, a phosphoinositide binding module

    9. XM_039090666.2 → XP_038946594.1  zinc finger CCHC domain-containing protein 2 isoform X12

      Conserved Domains (1) summary
      cl02563
      Location:356 → 456
      PX_domain; The Phox Homology domain, a phosphoinositide binding module

    10. XM_063272225.1 → XP_063128295.1  zinc finger CCHC domain-containing protein 2 isoform X9

    11. XM_063272224.1 → XP_063128294.1  zinc finger CCHC domain-containing protein 2 isoform X9

    12. XM_063272227.1 → XP_063128297.1  zinc finger CCHC domain-containing protein 2 isoform X11

    13. XM_063272226.1 → XP_063128296.1  zinc finger CCHC domain-containing protein 2 isoform X10

    RNA

    1. XR_010056913.1 RNA Sequence

    2. XR_005492235.2 RNA Sequence

    3. XR_005492237.2 RNA Sequence

    4. XR_005492236.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001034142.1: Suppressed sequence

      Description
      NM_001034142.1: This RefSeq was permanently suppressed because the CDS is partial.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q498S6.2 GenPept UniProtKB/Swiss-Prot:Q498S6

    Gene LinkOut

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

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