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

Gene ID: 23302, updated on 5-Mar-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 membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
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_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (6069116..6124427)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (5963314..6018611)
105.20220307 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)

Genotypes

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_2023_10

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

  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
    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

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