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    ZSCAN12 zinc finger and SCAN domain containing 12 [ Homo sapiens (human) ]

    Gene ID: 9753, updated on 5-Mar-2024

    Summary

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    Official Symbol
    ZSCAN12provided by HGNC
    Official Full Name
    zinc finger and SCAN domain containing 12provided by HGNC
    Primary source
    HGNC:HGNC:13172
    See related
    Ensembl:ENSG00000158691 MIM:603978; AllianceGenome:HGNC:13172
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ZFP96; ZNF96; ZNF305; ZNF29K1; dJ29K1.2
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thyroid (RPKM 1.8), ovary (RPKM 1.5) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    6p22.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28378821..28399747, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (28250381..28271202, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (28346598..28367524, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene SMIM15 pseudogene 2 Neighboring gene zinc finger and SCAN domain containing 31 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24353 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24354 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:28321865-28322364 Neighboring gene zinc finger with KRAB and SCAN domains 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24355 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:28324191-28325095 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24356 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17045 Neighboring gene uncharacterized LOC105374998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24357 Neighboring gene zinc finger protein 968, pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Methylation statuses of NCOR2, PARK2, and ZSCAN12 signify densities of tumor-infiltrating lymphocytes in gastric carcinoma. Wen X, et al. Sci Rep, 2022 Jan 17. PMID 35039565, Free PMC Article
    2. Three genes encoding zinc finger proteins on human chromosome 6p21.3: members of a new subclass of the Kruppel gene family containing the conserved SCAN box domain. Lee PL, et al. Genomics, 1997 Jul 15. PMID 9244436
    3. Prediction of the coding sequences of unidentified human genes. VIII. 78 new cDNA clones from brain which code for large proteins in vitro. Ishikawa K, et al. DNA Res, 1997 Oct 31. PMID 9455477
    4. Systematic identification of pathological lamin A interactors. Dittmer TA, et al. Mol Biol Cell, 2014 May. PMID 24623722, Free PMC Article
    5. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. Dias Neto E, et al. Proc Natl Acad Sci U S A, 2000 Mar 28. PMID 10737800, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Methylation statuses of NCOR2, PARK2, and ZSCAN12 signify densities of tumor-infiltrating lymphocytes in gastric carcinoma.
      Title: Methylation statuses of NCOR2, PARK2, and ZSCAN12 signify densities of tumor-infiltrating lymphocytes in gastric carcinoma.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0426

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger and SCAN domain-containing protein 12
    Names
    zinc finger protein 305
    zinc finger protein 96

    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_001163391.2 → NP_001156863.1  zinc finger and SCAN domain-containing protein 12

      See identical proteins and their annotated locations for NP_001156863.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1), as well as variant 10, encodes the functional protein.
      Source sequence(s)
      Z98745
      Consensus CDS
      CCDS93876.1
      UniProtKB/Swiss-Prot
      A0A024RCI2, A8K187, O43309, O43724
      UniProtKB/TrEMBL
      A0A804HJ42
      Related
      ENSP00000507347.1, ENST00000684592.1
      Conserved Domains (4) summary
      smart00431
      Location:42 → 152
      SCAN; leucine rich region
      COG5048
      Location:299 → 579
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:499 → 519
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:581 → 603
      zf-C2H2; Zinc finger, C2H2 type

    2. NM_001368124.1 → NP_001355053.1  zinc finger and SCAN domain-containing protein 12

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10), as well as variant 1, encodes the functional protein.
      Source sequence(s)
      Z98745
      Consensus CDS
      CCDS93876.1
      UniProtKB/Swiss-Prot
      A0A024RCI2, A8K187, O43309, O43724
      UniProtKB/TrEMBL
      A0A804HJ42
      Conserved Domains (4) summary
      smart00431
      Location:42 → 152
      SCAN; leucine rich region
      COG5048
      Location:299 → 579
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:499 → 519
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:581 → 603
      zf-C2H2; Zinc finger, C2H2 type

    RNA

    1. NR_028077.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL358785, AL602228, BC041661, CX868415

    2. NR_133668.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) does not share exon structure with the protein-coding variant (1). This variant (3) shares 3' exons with variant (2) but uses an alternate 5' exon. This variant is represented as non-coding because it lacks all of the coding region, including the translational start codon, found in variant 1.
      Source sequence(s)
      AL358785, CX868415, DB014565, Z98745

    3. NR_133669.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) does not share exon structure with the protein-coding variant (1). This variant (4) shares 3' exons with variant (2) but uses an alternate 5' exon. This variant is represented as non-coding because it lacks all of the coding region, including the translational start codon, found in variant 1.
      Source sequence(s)
      AL358785, BI829158, CX868415, DA301736, Z98745

    4. NR_136509.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL358785, AL602228, BC041661, CX868415, Z98745

    5. NR_136510.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) uses an alternate splice site in an internal exon and contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL358785, AL602228, BC041661, BF091581, BF091593, CX868415, Z98745

    6. NR_136511.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL358785, AL602228, BC041661, CX868415

    7. NR_136512.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) uses an alternate splice site in an internal exon and contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL358785, AL602228, BC041661, CX868415, Z98745

    8. NR_136513.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) lacks three exons and contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because it lacks the entire ORF found in variant 1.
      Source sequence(s)
      AL358785, AL602228, BC041661, CX868415

    9. NR_160526.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL358785, Z98745

    10. NR_160527.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL358785, Z98745

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      28378821..28399747 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047419596.1 → XP_047275552.1  zinc finger and SCAN domain-containing protein 12 isoform X3

      Related
      ENSP00000380039.3, ENST00000396827.3

    2. XM_047419597.1 → XP_047275553.1  zinc finger and SCAN domain-containing protein 12 isoform X4

    3. XM_047419599.1 → XP_047275555.1  zinc finger and SCAN domain-containing protein 12 isoform X5

    4. XM_047419595.1 → XP_047275551.1  zinc finger and SCAN domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      A0A024RCI2, A8K187, O43309, O43724
      UniProtKB/TrEMBL
      A0A804HJ42

    5. XM_047419594.1 → XP_047275550.1  zinc finger and SCAN domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      A0A024RCI2, A8K187, O43309, O43724
      UniProtKB/TrEMBL
      A0A804HJ42

    6. XM_047419598.1 → XP_047275554.1  zinc finger and SCAN domain-containing protein 12 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      28250381..28271202 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054356893.1 → XP_054212868.1  zinc finger and SCAN domain-containing protein 12 isoform X1

    2. XM_054356894.1 → XP_054212869.1  zinc finger and SCAN domain-containing protein 12 isoform X2

    RNA

    1. XR_008487513.1 RNA Sequence

    2. XR_008487514.1 RNA Sequence

    3. XR_008487515.1 RNA Sequence

    4. XR_008487512.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_014724.2: Suppressed sequence

      Description
      NM_014724.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O43309.2 GenPept UniProtKB/Swiss-Prot:O43309

    Gene LinkOut

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

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