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

Gene ID: 51282, updated on 2-Nov-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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See SCAND1 in Genome Data Viewer
Location:
20q11.23
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (35953624..35959472, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (37674621..37680469, complement)
RS_2024_09 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 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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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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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

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_2024_08

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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