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    WSCD1 WSC domain containing 1 [ Homo sapiens (human) ]

    Gene ID: 23302, updated on 27-Nov-2024

    Summary

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    Official Symbol
    WSCD1provided by HGNC
    Official Full Name
    WSC domain containing 1provided by HGNC
    Primary source
    HGNC:HGNC:29060
    See related
    Ensembl:ENSG00000179314 MIM:619584; AllianceGenome:HGNC:29060
    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
    Summary
    Predicted to enable sulfotransferase activity. Predicted to be located in Golgi membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in brain (RPKM 6.9), spleen (RPKM 4.6) and 14 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See WSCD1 in Genome Data Viewer
    Location:
    17p13.2
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (6069116..6124427)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (5963314..6018611)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (5972436..6027747)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene nipsnap homolog 1 (C. elegans) pseudogene Neighboring gene MED14-independent group 3 enhancer GRCh37_chr17:5635830-5637029 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11582 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11583 Neighboring gene uncharacterized LOC339166 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:5740831-5741332 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:5800477-5801376 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:5801377-5802275 Neighboring gene NANOG hESC enhancer GRCh37_chr17:5816130-5816781 Neighboring gene Sharpr-MPRA regulatory region 3217 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:5972935-5973766 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:5983596-5984097 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:5990226-5990917 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:5999248-6000148 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:6000149-6001047 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:6001681-6002448 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:6011648-6011820 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:6038771-6039272 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr17:6042463-6043017 Neighboring gene uncharacterized LOC105371508 Neighboring gene Sharpr-MPRA regulatory region 13257 Neighboring gene RNA, U6 small nuclear 1264, 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. Association of granulomatosis with polyangiitis (Wegener's) with HLA-DPB1*04 and SEMA6A gene variants: evidence from genome-wide analysis. Xie G, et al. Arthritis Rheum, 2013 Sep. PMID 23740775, Free PMC Article
    2. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. Nagase T, et al. DNA Res, 1998 Feb 28. PMID 9628581
    3. Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche. Perry JR, et al. Nature, 2014 Oct 2. PMID 25231870, Free PMC Article
    4. A genome-wide short hairpin RNA screening of jurkat T-cells for human proteins contributing to productive HIV-1 replication. Yeung ML, et al. J Biol Chem, 2009 Jul 17. PMID 19460752, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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

    EBI GWAS Catalog

    Description
    Association of granulomatosis with polyangiitis (Wegener's) with HLA-DPB1*04 and SEMA6A gene variants: evidence from genome-wide analysis.
    EBI GWAS Catalog
    Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of WSC domain containing 1 (WSCD1) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

    Go to the HIV-1, Human Interaction Database

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0523

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables sulfotransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    sialate:O-sulfotransferase 1
    Names
    WSC domain-containing protein 1

    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_001388405.1 → NP_001375334.1  sialate:O-sulfotransferase 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      Consensus CDS
      CCDS32538.1
      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Related
      ENSP00000460825.1, ENST00000574946.5
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:425 → 517
      Sulfotransfer_3; Sulfotransferase family

    2. NM_001388406.1 → NP_001375335.1  sialate:O-sulfotransferase 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      Consensus CDS
      CCDS32538.1
      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Related
      ENSP00000458374.1, ENST00000574232.5
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:425 → 517
      Sulfotransfer_3; Sulfotransferase family

    3. NM_001388407.1 → NP_001375336.1  sialate:O-sulfotransferase 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      Consensus CDS
      CCDS32538.1
      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:425 → 517
      Sulfotransfer_3; Sulfotransferase family

    4. NM_001388408.1 → NP_001375337.1  sialate:O-sulfotransferase 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      UniProtKB/TrEMBL
      I3L3E6
      Related
      ENSP00000460396.1, ENST00000573634.5
      Conserved Domains (2) summary
      smart00321
      Location:77 → 172
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:257 → 349
      Sulfotransfer_3; Sulfotransferase family

    5. NM_001388409.1 → NP_001375338.1  sialate:O-sulfotransferase 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      UniProtKB/TrEMBL
      I3L3E6
      Conserved Domains (2) summary
      smart00321
      Location:77 → 172
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:257 → 349
      Sulfotransfer_3; Sulfotransferase family

    6. NM_001388410.1 → NP_001375339.1  sialate:O-sulfotransferase 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC104770
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl02568
      Location:245 → 287
      WSC; WSC domain

    7. NM_001388411.1 → NP_001375340.1  sialate:O-sulfotransferase 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl02568
      Location:245 → 287
      WSC; WSC domain

    8. NM_015253.2 → NP_056068.1  sialate:O-sulfotransferase 1 isoform 1

      See identical proteins and their annotated locations for NP_056068.1

      Status: VALIDATED

      Source sequence(s)
      AC001231, AC104770, AL833730, BC009975, BE504506
      Consensus CDS
      CCDS32538.1
      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Related
      ENSP00000323087.5, ENST00000317744.10
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:425 → 517
      Sulfotransfer_3; Sulfotransferase family

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      6069116..6124427
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047435701.1 → XP_047291657.1  sialate:O-sulfotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45

    2. XM_047435702.1 → XP_047291658.1  sialate:O-sulfotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Related
      ENSP00000519350.1, ENST00000714060.1

    3. XM_005256572.2 → XP_005256629.1  sialate:O-sulfotransferase 1 isoform X1

      See identical proteins and their annotated locations for XP_005256629.1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
      Related
      ENSP00000458527.2, ENST00000571973.2
      Conserved Domains (2) summary
      smart00321
      Location:142 → 234
      WSC; present in yeast cell wall integrity and stress response component proteins
      cl21551
      Location:425 → 517
      Sulfotransfer_3; Sulfotransferase family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      5963314..6018611
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054315621.1 → XP_054171596.1  sialate:O-sulfotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45

    2. XM_054315622.1 → XP_054171597.1  sialate:O-sulfotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45

    3. XM_054315620.1 → XP_054171595.1  sialate:O-sulfotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K0N8, D3DTM3, O60276, Q658N2, Q96G45
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q658N2.1 GenPept UniProtKB/Swiss-Prot:Q658N2

    Gene LinkOut

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

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