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    SCGB1C1 secretoglobin family 1C member 1 [ Homo sapiens (human) ]

    Gene ID: 147199, updated on 17-Jun-2024

    Summary

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    Official Symbol
    SCGB1C1provided by HGNC
    Official Full Name
    secretoglobin family 1C member 1provided by HGNC
    Primary source
    HGNC:HGNC:18394
    See related
    Ensembl:ENSG00000188076 MIM:610176; AllianceGenome:HGNC:18394
    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
    Also known as
    RYD5
    Summary
    Predicted to be located in extracellular region. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    mouse all
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    Genomic context

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    See SCGB1C1 in Genome Data Viewer
    Location:
    11p15.5
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (188050..194575)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (228737..235264)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (193078..194575)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112268070 Neighboring gene RNA, U6 small nuclear 447, pseudogene Neighboring gene uncharacterized LOC101930129 Neighboring gene ciliary microtubule associated protein 1A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:205815-206314 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:206625-207126 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2986 Neighboring gene Bet1 golgi vesicular membrane trafficking protein like

    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. Differentially expressed Secretoglobin 1C1 gene in nasal polyposis. Özdaş S, et al. Cell Mol Biol (Noisy-le-grand), 2018 Jan 31. PMID 29412801
    2. Single-Nucleotide Polymorphisms on the RYD5 Gene in Nasal Polyposis. Özdaş S, et al. DNA Cell Biol, 2015 Oct. PMID 26204469, Free PMC Article
    3. Novel genes for potential ligand-binding proteins in subregions of the olfactory mucosa. Dear TN, et al. EMBO J, 1991 Oct. PMID 1915264, Free PMC Article
    4. Secretoglobins SCGB3A1 and SCGB3A2 define secretory cell subsets in mouse and human airways. Reynolds SD, et al. Am J Respir Crit Care Med, 2002 Dec 1. PMID 12406855
    5. A genome- and phenome-wide association study to identify genetic variants influencing platelet count and volume and their pleiotropic effects. Shameer K, et al. Hum Genet, 2014 Jan. PMID 24026423, Free PMC Article

    See all (13) citations in PubMed

    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
    A genome- and phenome-wide association study to identify genetic variants influencing platelet count and volume and their pleiotropic effects.
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    secretoglobin family 1C member 1
    Names
    ligand binding protein RYD5
    secretoglobin RYD5

    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_145651.3 → NP_663626.2  secretoglobin family 1C member 1 precursor

      See identical proteins and their annotated locations for NP_663626.2

      Status: VALIDATED

      Source sequence(s)
      AC069287, AY026938
      Consensus CDS
      CCDS41581.1
      UniProtKB/Swiss-Prot
      A8MSI9, Q14DW0, Q8TD33
      Related
      ENSP00000344545.2, ENST00000342878.3
      Conserved Domains (1) summary
      pfam01099
      Location:28 → 91
      Uteroglobin; Uteroglobin 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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      188050..194575
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005252804.4 → XP_005252861.2  secretoglobin family 1C member 1 isoform X1

      Conserved Domains (1) summary
      pfam01099
      Location:71 → 134
      Uteroglobin; Uteroglobin family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      228737..235264
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054367810.1 → XP_054223785.1  secretoglobin family 1C member 1 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8TD33.2 GenPept UniProtKB/Swiss-Prot:Q8TD33

    Gene LinkOut

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

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