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

Gene ID: 51282, updated on 7-Jun-2020

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
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
mouse all

Genomic context

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See SCAND1 in Genome Data Viewer
Location:
20q11.23
Exon count:
3
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (35953617..35955359, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (34541539..34543281, 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 RNA, U6 small nuclear 937, pseudogene Neighboring gene cyclic nucleotide binding domain containing 2 Neighboring gene non-coding RNA activated by DNA damage Neighboring gene erythrocyte membrane protein band 4.1 like 1 Neighboring gene high mobility group box 3 pseudogene 2

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. 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
  3. 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
  4. 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
  5. The SCAN domain mediates selective oligomerization. Schumacher C, et al. J Biol Chem, 2000 Jun 2. PMID 10747874

See all (24) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Observational study of gene-disease association. (HuGE Navigator)
    Title: Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations.
  2. 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
DNA-binding transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
  
identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
  
protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
positive regulation of nucleic acid-templated transcription IEA
Inferred from Electronic Annotation
more info
  
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
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_016558.3 → NP_057642.1  SCAN domain-containing protein 1 isoform 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, BU752664, BU848795
    Consensus CDS
    CCDS13269.1
    UniProtKB/Swiss-Prot
    P57086
    UniProtKB/TrEMBL
    Q9NZG6
    Related
    ENSP00000481289.1, ENST00000615116.1
    Conserved Domains (1) summary
    pfam02023
    Location:104 → 162
    SCAN; SCAN domain

  2. NM_033630.2 → NP_361012.2  SCAN domain-containing protein 1 isoform 2

    See identical proteins and their annotated locations for NP_361012.2

    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)
    AF207829, BU190039, BU752664
    UniProtKB/TrEMBL
    H0UIA5, Q9NZG6
    Conserved Domains (1) summary
    pfam02023
    Location:167 → 225
    SCAN; SCAN domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    35953617..35955359 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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