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DKK3 dickkopf WNT signaling pathway inhibitor 3 [ Homo sapiens (human) ]

Gene ID: 27122, updated on 27-Nov-2024

Summary

Official Symbol
DKK3provided by HGNC
Official Full Name
dickkopf WNT signaling pathway inhibitor 3provided by HGNC
Primary source
HGNC:HGNC:2893
See related
Ensembl:ENSG00000050165 MIM:605416; AllianceGenome:HGNC:2893
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
RIG; CRRL; REIC
Summary
This gene encodes a protein that is a member of the dickkopf family. The secreted protein contains two cysteine rich regions and is involved in embryonic development through its interactions with the Wnt signaling pathway. The expression of this gene is decreased in a variety of cancer cell lines and it may function as a tumor suppressor gene. Alternative splicing results in multiple transcript variants encoding the same protein. [provided by RefSeq, Jul 2008]
Expression
Biased expression in heart (RPKM 451.8), brain (RPKM 155.8) and 7 other tissues See more
Orthologs
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Genomic context

See DKK3 in Genome Data Viewer
Location:
11p15.3
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (11963036..12009745, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (12054919..12101206, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (11984583..12030883, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984311 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:11862595-11863460 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:11863461-11864324 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4461 Neighboring gene ubiquitin specific peptidase 47 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:11892436-11893242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:11893243-11894047 Neighboring gene H3 histone pseudogene 33 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3160 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11989412-11990036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11990037-11990660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11990661-11991284 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:11991285-11991908 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11997959-11998520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11998521-11999082 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12028425-12029360 Neighboring gene long intergenic non-protein coding RNA 2547 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:12087483-12088682 Neighboring gene long intergenic non-protein coding RNA 2989

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

EBI GWAS Catalog

Description
Genetic association with overall survival of taxane-treated lung cancer patients - A genome-wide association study in human lymphoblastoid cell lines followed by a clinical association study.
EBI GWAS Catalog
Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
EBI GWAS Catalog
Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables co-receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables receptor antagonist activity IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
dickkopf-related protein 3
Names
RIG-like 5-6
RIG-like 7-1
cardiomyocyte regeneration-related lncRNA
dickkopf 3 homolog
dickkopf homolog 3
dickkopf-3
dkk-3
hDkk-3
regulated in glioma

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_001018057.2NP_001018067.1  dickkopf-related protein 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001018067.1

    Status: REVIEWED

    Source sequence(s)
    AL535720, BC007660, BQ690088, H18461
    Consensus CDS
    CCDS7808.1
    UniProtKB/Swiss-Prot
    A8K1I2, D3DQW1, Q9UBP4, Q9ULB7
    UniProtKB/TrEMBL
    Q6PQ81
    Related
    ENSP00000506835.1, ENST00000683431.1
    Conserved Domains (2) summary
    pfam06607
    Location:208273
    Prokineticin; Prokineticin
    pfam04706
    Location:147196
    Dickkopf_N; Dickkopf N-terminal cysteine-rich region
  2. NM_001330220.3NP_001317149.1  dickkopf-related protein 3 isoform 2 precursor

    Status: REVIEWED

    Source sequence(s)
    AB057591, AC124276, BF724383, BQ894810
    Consensus CDS
    CCDS81555.1
    UniProtKB/TrEMBL
    B4DID6, F6SYF8
  3. NM_013253.5NP_037385.2  dickkopf-related protein 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_037385.2

    Status: REVIEWED

    Source sequence(s)
    AB057591, BC007660, BQ690088, H18461
    Consensus CDS
    CCDS7808.1
    UniProtKB/Swiss-Prot
    A8K1I2, D3DQW1, Q9UBP4, Q9ULB7
    UniProtKB/TrEMBL
    Q6PQ81
    Related
    ENSP00000314910.4, ENST00000326932.8
    Conserved Domains (2) summary
    pfam06607
    Location:208273
    Prokineticin; Prokineticin
    pfam04706
    Location:147196
    Dickkopf_N; Dickkopf N-terminal cysteine-rich region
  4. NM_015881.6NP_056965.3  dickkopf-related protein 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_056965.3

    Status: REVIEWED

    Source sequence(s)
    AC124276, BC007660, BQ690088, CB156451, H18461
    Consensus CDS
    CCDS7808.1
    UniProtKB/Swiss-Prot
    A8K1I2, D3DQW1, Q9UBP4, Q9ULB7
    UniProtKB/TrEMBL
    Q6PQ81
    Related
    ENSP00000379762.2, ENST00000396505.7
    Conserved Domains (2) summary
    pfam06607
    Location:208273
    Prokineticin; Prokineticin
    pfam04706
    Location:147196
    Dickkopf_N; Dickkopf N-terminal cysteine-rich region

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
    11963036..12009745 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047426775.1XP_047282731.1  dickkopf-related protein 3 isoform X2

    UniProtKB/Swiss-Prot
    A8K1I2, D3DQW1, Q9UBP4, Q9ULB7
  2. XM_047426774.1XP_047282730.1  dickkopf-related protein 3 isoform X1

    UniProtKB/TrEMBL
    F6SYF8
    Related
    ENSP00000433112.1, ENST00000525493.5
  3. XM_006718178.3XP_006718241.1  dickkopf-related protein 3 isoform X2

    See identical proteins and their annotated locations for XP_006718241.1

    UniProtKB/Swiss-Prot
    A8K1I2, D3DQW1, Q9UBP4, Q9ULB7
    UniProtKB/TrEMBL
    Q6PQ81
    Conserved Domains (2) summary
    pfam06607
    Location:208273
    Prokineticin; Prokineticin
    pfam04706
    Location:147196
    Dickkopf_N; Dickkopf N-terminal cysteine-rich region
  4. XM_017017555.2XP_016873044.1  dickkopf-related protein 3 isoform X1

    UniProtKB/TrEMBL
    B4DID6, F6SYF8

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    12054919..12101206 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)