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Aliases for XKR3 Gene

Aliases for XKR3 Gene

  • XK Related 3 2 3 5
  • XK, Kell Blood Group Complex Subunit-Related Family, Member 3 2 3
  • X Kell Blood Group Precursor-Related Family, Member 3 2 3
  • X Kell Blood Group-Related 3 3 4
  • XRG3 3 4
  • XTES 3 4
  • X-Linked Kx Blood Group Related 3 3
  • XK-Related Protein 3 3
  • Expressed In Testis 3

External Ids for XKR3 Gene

Previous GeneCards Identifiers for XKR3 Gene

  • GC22M015639
  • GC22M017264
  • GC22M001083

Summaries for XKR3 Gene

Entrez Gene Summary for XKR3 Gene

  • XKRX (MIM 300684) and XKR3 are homologs of the Kell blood group precursor XK (MIM 314850), which is a putative membrane transporter and a component of the XK/Kell complex of the Kell blood group system (Calenda et al., 2006 [PubMed 16431037]).[supplied by OMIM, Mar 2008]

GeneCards Summary for XKR3 Gene

XKR3 (XK Related 3) is a Protein Coding gene. An important paralog of this gene is XKRX.

Additional gene information for XKR3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for XKR3 Gene

Genomics for XKR3 Gene

GeneHancer (GH) Regulatory Elements for XKR3 Gene

Promoters and enhancers for XKR3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH22I016821 Promoter 0.5 EPDnew 550.8 +0.0 3 0.1 XKR3 LINC01665
GH22I016774 Enhancer 0.9 Ensembl ENCODE 12.2 +46.6 46633 0.7 BCOR HNRNPUL1 CTCF ATF1 RAD21 ZBTB40 ZNF280A ZNF335 CC2D1A NCOR1 XKR3 HSFY1P1 LINC01665
GH22I016917 Enhancer 0.6 ENCODE 10.5 -95.9 -95927 0.2 CTCF MAZ ZNF654 ATF1 GFI1B TRIM22 REST RAD21 SMC3 ZNF143 GAB4 HSFY1P1 XKR3 IGKV2OR22-3 IGKV2OR22-4
GH22I016721 Enhancer 0.5 FANTOM5 Ensembl 6.8 +99.4 99398 1.4 RNF2 TPTEP1 XKR3 ADA2 IL17RA VWFP1 PIR52821
GH22I016824 Enhancer 1.2 FANTOM5 Ensembl ENCODE 0.8 -3.4 -3404 1.4 MEIS2 USF1 BACH1 BATF FOSL1 CTBP1 ZNF316 ZNF350 NFE2 FOS IL17RA ADA2 XKR3 HSFY1P1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around XKR3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the XKR3 gene promoter:

Genomic Locations for XKR3 Gene

Genomic Locations for XKR3 Gene
38,288 bases
Minus strand

Genomic View for XKR3 Gene

Genes around XKR3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
XKR3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for XKR3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for XKR3 Gene

Proteins for XKR3 Gene

  • Protein details for XKR3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    XK-related protein 3
    Protein Accession:
    Secondary Accessions:
    • B2RPN1
    • Q52PG8
    • Q8N7E1

    Protein attributes for XKR3 Gene

    459 amino acids
    Molecular mass:
    53448 Da
    Quaternary structure:
    No Data Available

neXtProt entry for XKR3 Gene

Post-translational modifications for XKR3 Gene

No Post-translational modifications

Other Protein References for XKR3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for XKR3 Gene

Domains & Families for XKR3 Gene

Gene Families for XKR3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for XKR3 Gene


Suggested Antigen Peptide Sequences for XKR3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the XK family.
  • Belongs to the XK family.
genes like me logo Genes that share domains with XKR3: view

Function for XKR3 Gene

genes like me logo Genes that share phenotypes with XKR3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for XKR3 Gene

Localization for XKR3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for XKR3 Gene

Cell membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for XKR3 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for XKR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with XKR3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for XKR3 Gene

Pathways & Interactions for XKR3 Gene

No Data Available

Interacting Proteins for XKR3 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
Selected Interacting proteins: Q5GH77-XKR3_HUMAN ENSP00000331704 for XKR3 Gene via IID STRING

Gene Ontology (GO) - Biological Process for XKR3 Gene


No data available for Pathways by source and SIGNOR curated interactions for XKR3 Gene

Drugs & Compounds for XKR3 Gene

No Compound Related Data Available

Transcripts for XKR3 Gene

mRNA/cDNA for XKR3 Gene

(3) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(7) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for XKR3 Gene

XK, Kell blood group complex subunit-related family, member 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for XKR3 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4

Relevant External Links for XKR3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for XKR3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for XKR3 Gene

mRNA differential expression in normal tissues according to GTEx for XKR3 Gene

This gene is overexpressed in Testis (x35.0) and Whole Blood (x10.6).

Protein differential expression in normal tissues from HIPED for XKR3 Gene

This gene is overexpressed in Blymphocyte (51.3) and Monocytes (16.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for XKR3 Gene

Protein tissue co-expression partners for XKR3 Gene

NURSA nuclear receptor signaling pathways regulating expression of XKR3 Gene:


SOURCE GeneReport for Unigene cluster for XKR3 Gene:


mRNA Expression by UniProt/SwissProt for XKR3 Gene:

Tissue specificity: Expressed predominantly, if not exclusively, in testis.
genes like me logo Genes that share expression patterns with XKR3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for XKR3 Gene

Orthologs for XKR3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for XKR3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia XKR3 34
  • 93 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 36 (a)
(Gallus gallus)
Aves -- 34
  • 39 (a)
(Danio rerio)
Actinopterygii xkrx 34
  • 33 (a)
Species where no ortholog for XKR3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for XKR3 Gene

Gene Tree for XKR3 (if available)
Gene Tree for XKR3 (if available)

Paralogs for XKR3 Gene

Paralogs for XKR3 Gene

(4) SIMAP similar genes for XKR3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with XKR3: view

Variants for XKR3 Gene

Sequence variations from dbSNP and Humsavar for XKR3 Gene

SNP ID Clin Chr 22 pos Variation AA Info Type
rs1000107407 -- 16,789,124(-) T/C intron_variant
rs1000117393 -- 16,807,164(-) T/C intron_variant
rs1000142500 -- 16,811,828(-) G/A intron_variant
rs1000349432 -- 16,817,674(-) C/G intron_variant
rs1000427674 -- 16,824,046(-) T/C genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for XKR3 Gene

Variant ID Type Subtype PubMed ID
nsv834117 CNV gain 17160897
nsv828922 CNV loss 20364138
nsv588084 CNV loss 21841781
nsv588083 CNV loss 21841781
nsv588082 CNV loss 21841781
nsv588081 CNV loss 21841781
nsv588077 CNV gain 21841781
nsv588062 CNV gain 21841781
nsv527637 CNV gain 19592680
nsv517059 CNV gain+loss 19592680
nsv471178 CNV gain 18288195
nsv459333 CNV loss 19166990
nsv1072194 CNV deletion 25765185
nsv1067241 CNV loss 25217958
nsv1064641 CNV gain 25217958
esv3893423 CNV gain 25118596
esv3647196 CNV gain 21293372
esv3575407 CNV gain 25503493
esv3575406 CNV gain 25503493
esv3568223 CNV loss 25503493
esv3568222 CNV loss 25503493
esv3397164 CNV insertion 20981092
esv2763696 CNV gain 21179565
dgv819e214 CNV gain 21293372
dgv814e199 CNV deletion 23128226
dgv7948n54 CNV loss 21841781
dgv7947n54 CNV gain 21841781
dgv7946n54 CNV gain 21841781
dgv7943n54 CNV gain 21841781
dgv540n27 CNV gain 19166990
dgv4463n100 CNV gain 25217958
dgv4462n100 CNV gain 25217958
dgv4461n100 CNV loss 25217958
dgv4460n100 CNV gain 25217958
dgv4459n100 CNV gain 25217958
dgv2424n106 CNV deletion 24896259
dgv1276e212 CNV gain 25503493

Variation tolerance for XKR3 Gene

Residual Variation Intolerance Score: 72.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.59; 12.74% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for XKR3 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for XKR3 Gene

Disorders for XKR3 Gene

Additional Disease Information for XKR3

No disorders were found for XKR3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for XKR3 Gene

Publications for XKR3 Gene

  1. Identification of two new members, XPLAC and XTES, of the XK family. (PMID: 16431037) Calenda G … Lee S (Gene 2006) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58
  4. NUP214 fusion genes in acute leukemia (Review). (PMID: 25120641) Zhou MH … Yang QM (Oncology letters 2014) 3 58
  5. Robust, high-throughput solution for blood group genotyping. (PMID: 20560530) Le Goff GC … Marquette CA (Analytical chemistry 2010) 3 58

Products for XKR3 Gene

Sources for XKR3 Gene

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