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

Gene ID: 147199, updated on 27-Nov-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, Nov 2024]
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_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (188050..194575)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (228737..235264)
RS_2024_09 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)

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_2024_08

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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