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    RSPO1 R-spondin 1 [ Homo sapiens (human) ]

    Gene ID: 284654, updated on 17-Jun-2024

    Summary

    Official Symbol
    RSPO1provided by HGNC
    Official Full Name
    R-spondin 1provided by HGNC
    Primary source
    HGNC:HGNC:21679
    See related
    Ensembl:ENSG00000169218 MIM:609595; AllianceGenome:HGNC:21679
    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
    RSPO; CRISTIN3
    Summary
    This gene encodes a secreted activator protein with two cysteine-rich, furin-like domains and one thrombospondin type 1 domain. The encoded protein is a ligand for leucine-rich repeat-containing G-protein coupled receptors (LGR proteins) and positively regulates the Wnt signaling pathway. In mice, the protein induces the rapid onset of crypt cell proliferation and increases intestinal epithelial healing, providing a protective effect against chemotherapy-induced adverse effects. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2014]
    Expression
    Biased expression in endometrium (RPKM 16.2), skin (RPKM 2.3) and 5 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RSPO1 in Genome Data Viewer
    Location:
    1p34.3
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (37611350..37634892, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (37476097..37499638, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (38076951..38100564, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38021148-38022118 Neighboring gene Sharpr-MPRA regulatory region 12224 Neighboring gene ribosomal protein S27 pseudogene 9 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:38033816-38035015 Neighboring gene dynein axonemal light intermediate chain 1 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:38041731-38042930 Neighboring gene G protein nucleolar 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 770 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 771 Neighboring gene Sharpr-MPRA regulatory region 1638 Neighboring gene Sharpr-MPRA regulatory region 1490 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38096333-38096846 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:38098855-38099382 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:38099911-38100438 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38100439-38100965 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38126219-38126852 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38128815-38129348 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38129349-38129881 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:38132271-38132990 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 773 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 774 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:38156929-38157439 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:38157440-38157949 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:38157950-38158460 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:38158461-38158969 Neighboring gene AFG2 interacting ribosome maturation factor Neighboring gene cell division cycle associated 8

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Palmoplantar keratoderma-XX sex reversal-predisposition to squamous cell carcinoma syndrome
    MedGen: C3149931 OMIM: 610644 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Nine loci for ocular axial length identified through genome-wide association studies, including shared loci with refractive error.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General protein information

    Preferred Names
    R-spondin-1
    Names
    R-spondin homolog
    roof plate-specific spondin-1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_012239.2 RefSeqGene

      Range
      4928..28470
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001038633.4NP_001033722.1  R-spondin-1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001033722.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AK098225, AL513220, DB273983, DQ318235
      Consensus CDS
      CCDS41304.1
      UniProtKB/Swiss-Prot
      A2A420, Q0H8S6, Q14C72, Q2MKA7, Q5T0F2, Q8N7L5
      Related
      ENSP00000383846.1, ENST00000401068.1
      Conserved Domains (2) summary
      pfam15913
      Location:42142
      Furin-like_2; Furin-like repeat, cysteine-rich
      pfam19028
      Location:148203
      TSP1_spondin; Spondin-like TSP1 domain
    2. NM_001242908.2NP_001229837.1  R-spondin-1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001229837.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL513220, DB273983, DQ165084
      Consensus CDS
      CCDS41304.1
      UniProtKB/Swiss-Prot
      A2A420, Q0H8S6, Q14C72, Q2MKA7, Q5T0F2, Q8N7L5
      Related
      ENSP00000348944.2, ENST00000356545.7
      Conserved Domains (2) summary
      pfam15913
      Location:42142
      Furin-like_2; Furin-like repeat, cysteine-rich
      pfam19028
      Location:148203
      TSP1_spondin; Spondin-like TSP1 domain
    3. NM_001242909.2NP_001229838.1  R-spondin-1 isoform 2

      See identical proteins and their annotated locations for NP_001229838.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate exon in the 5' UTR and uses an alternate splice site in the 5' region and initiates translation at an alternate upstream start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AK098225, AL513220, DB273983
      Consensus CDS
      CCDS55591.1
      UniProtKB/Swiss-Prot
      Q2MKA7
      Related
      ENSP00000481178.1, ENST00000615459.4
      Conserved Domains (2) summary
      cd00064
      Location:73115
      FU; Furin-like repeats. Cysteine rich region. Exact function of the domain is not known. Furin is a serine-kinase dependent proprotein processor. Other members of this family include endoproteases and cell surface receptors.
      pfam15913
      Location:15117
      Furin-like_2; Furin-like repeat, cysteine-rich
    4. NM_001242910.2NP_001229839.1  R-spondin-1 isoform 3 precursor

      See identical proteins and their annotated locations for NP_001229839.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate exon in the 5' UTR and lacks an in-frame exon in the 3' coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AL513220, DB273983, DQ165085
      Consensus CDS
      CCDS55590.1
      UniProtKB/Swiss-Prot
      Q2MKA7
      Related
      ENSP00000479832.1, ENST00000612451.4
      Conserved Domains (1) summary
      pfam15913
      Location:42143
      Furin-like_2; Furin-like repeat, cysteine-rich

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      37611350..37634892 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006710583.5XP_006710646.1  R-spondin-1 isoform X1

      See identical proteins and their annotated locations for XP_006710646.1

      UniProtKB/Swiss-Prot
      A2A420, Q0H8S6, Q14C72, Q2MKA7, Q5T0F2, Q8N7L5
      Conserved Domains (2) summary
      pfam15913
      Location:42142
      Furin-like_2; Furin-like repeat, cysteine-rich
      pfam19028
      Location:148203
      TSP1_spondin; Spondin-like TSP1 domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      37476097..37499638 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054336134.1XP_054192109.1  R-spondin-1 isoform X1

      UniProtKB/Swiss-Prot
      A2A420, Q0H8S6, Q14C72, Q2MKA7, Q5T0F2, Q8N7L5

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_173640.1: Suppressed sequence

      Description
      NM_173640.1: This RefSeq was permanently suppressed because there is insufficient support for the transcript and the protein.