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    SCAND1 SCAN domain containing 1 [ Homo sapiens (human) ]

    Gene ID: 51282, updated on 5-Mar-2024

    Summary

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    Official Symbol
    SCAND1provided by HGNC
    Official Full Name
    SCAN domain containing 1provided by HGNC
    Primary source
    HGNC:HGNC:10566
    See related
    Ensembl:ENSG00000171222 MIM:610416; AllianceGenome:HGNC:10566
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RAZ1; SDP1
    Summary
    This gene encodes a SCAN box domain-containing protein. The SCAN domain is a highly conserved, leucine-rich motif of approximately 60 aa originally found within a subfamily of zinc finger proteins. This gene belongs to a family of genes that encode an isolated SCAN domain, but no zinc finger motif. This protein binds to and may regulate the function of the transcription factor myeloid zinc finger 1B. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Jan 2011]
    Expression
    Ubiquitous expression in kidney (RPKM 14.6), fat (RPKM 13.5) and 25 other tissues See more
    Orthologs
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    Genomic context

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    Location:
    20q11.23
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (35953624..35959472, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (37674621..37680469, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (34541546..34547394, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene PHD finger protein 20 Neighboring gene RNA, U4 small nuclear 40, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:34494545-34495045 Neighboring gene RNA, U6 small nuclear 937, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17799 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17800 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17801 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17802 Neighboring gene uncharacterized LOC124904982 Neighboring gene cyclic nucleotide binding domain containing 2 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr20:34637879-34639078 Neighboring gene non-coding RNA activated by DNA damage

    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. Characterization of the SCAN box encoding RAZ1 gene: analysis of cDNA transcripts, expression, and cellular localization. Sander TL, et al. Gene, 2002 Aug 21. PMID 12383503
    2. SCAND1 Reverses Epithelial-to-Mesenchymal Transition (EMT) and Suppresses Prostate Cancer Growth and Migration. Eguchi T, et al. Cells, 2022 Dec 10. PMID 36552758, Free PMC Article
    3. Spectroscopic characterization of the tumor antigen NY-REN-21 and identification of heterodimer formation with SCAND1. Carneiro FR, et al. Biochem Biophys Res Commun, 2006 Apr 28. PMID 16540086
    4. SDP1 is a peroxisome-proliferator-activated receptor gamma 2 co-activator that binds through its SCAN domain. Babb R, et al. Biochem J, 2003 Mar 1. PMID 12444922, Free PMC Article
    5. Identification of a novel SCAN box-related protein that interacts with MZF1B. The leucine-rich SCAN box mediates hetero- and homoprotein associations. Sander TL, et al. J Biol Chem, 2000 Apr 28. PMID 10777584

    See all (27) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SCAND1 Reverses Epithelial-to-Mesenchymal Transition (EMT) and Suppresses Prostate Cancer Growth and Migration.
      Title: SCAND1 Reverses Epithelial-to-Mesenchymal Transition (EMT) and Suppresses Prostate Cancer Growth and Migration.
    2. Observational study of gene-disease association. (HuGE Navigator)
      Title: Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations.
    3. This result indicates that NY-REN-21 can function either as a homodimer or as a heterodimer with SCAND1.
      Title: Spectroscopic characterization of the tumor antigen NY-REN-21 and identification of heterodimer formation with SCAND1.
    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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    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    SCAN domain-containing protein 1
    Names
    SCAN-related protein RAZ1

    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_001385710.1 → NP_001372639.1  SCAN domain-containing protein 1

      Status: REVIEWED

      Source sequence(s)
      AL109965
      Consensus CDS
      CCDS13269.1
      UniProtKB/Swiss-Prot
      P57086, Q6IAG7
      UniProtKB/TrEMBL
      Q9NZG6
      Related
      ENSP00000363103.3, ENST00000373991.3
      Conserved Domains (1) summary
      pfam02023
      Location:104 → 162
      SCAN; SCAN domain

    2. NM_016558.4 → NP_057642.1  SCAN domain-containing protein 1

      See identical proteins and their annotated locations for NP_057642.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes isoform 1.
      Source sequence(s)
      AF207829, AL109965, BU848795
      Consensus CDS
      CCDS13269.1
      UniProtKB/Swiss-Prot
      P57086, Q6IAG7
      UniProtKB/TrEMBL
      Q9NZG6
      Related
      ENSP00000481289.1, ENST00000615116.1
      Conserved Domains (1) summary
      pfam02023
      Location:104 → 162
      SCAN; SCAN domain

    3. NM_033630.3 → NP_361012.3  SCAN domain-containing protein 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and contains an extra segment in the 5' coding region, compared to variant 1. These differences cause translation initiation at an upstream start codon, compared to variant 1. The encoded protein (isoform 2) has a longer N-terminus, compared to isoform 1.
      Source sequence(s)
      AL109965
      UniProtKB/Swiss-Prot
      P57086, Q6IAG7
      UniProtKB/TrEMBL
      Q9NZG6
      Related
      ENSP00000301995.2, ENST00000305978.7
      Conserved Domains (1) summary
      pfam02023
      Location:104 → 162
      SCAN; SCAN domain

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      35953624..35959472 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      37674621..37680469 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P57086.1 GenPept UniProtKB/Swiss-Prot:P57086

    Gene LinkOut

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

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