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

Gene ID: 9753, updated on 27-Nov-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, Nov 2024]
Expression
Ubiquitous expression in thyroid (RPKM 1.8), ovary (RPKM 1.5) and 25 other tissues See more
Orthologs
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Genomic context

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See ZSCAN12 in Genome Data Viewer
Location:
6p22.1
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28378821..28399747, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (28250381..28271202, complement)
RS_2024_09 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)

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_2024_08

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

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