Human Gene XKR4 (uc003xsf.3) Description and Page Index
  Description: Homo sapiens XK, Kell blood group complex subunit-related family, member 4 (XKR4), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr8:56,015,017-56,438,710 Size: 423,694 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr8:56,015,049-56,436,786 Size: 421,738 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:56,015,017-56,438,710)mRNA (may differ from genome)Protein (650 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMGIneXtProtPubMed
Stanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: XKR4_HUMAN
DESCRIPTION: RecName: Full=XK-related protein 4;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SIMILARITY: Belongs to the XK family.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): XKR4
CDC HuGE Published Literature: XKR4
Positive Disease Associations: Attention Deficit Disorder with Hyperactivity , Blood Pressure , Cholesterol , Diabetic Nephropathies , Echocardiography , Heart Failure , Lipoproteins, VLDL , Myocardial Infarction , Resistin
Related Studies:
  1. Attention Deficit Disorder with Hyperactivity
    , , . [PubMed 0]
  2. Attention Deficit Disorder with Hyperactivity
    , , . [PubMed 0]
  3. Blood Pressure
    Christopher J O'Donnell et al. BMC medical genetics 2007, Genome-wide association study for subclinical atherosclerosis in major arterial territories in the NHLBI's Framingham Heart Study., BMC medical genetics. [PubMed 17903303]
    The results from this GWAS generate hypotheses regarding several SNPs that may be associated with SCA phenotypes in multiple arterial beds. Given the number of tests conducted, subsequent independent replication in a staged approach is essential to identify genetic variants that may be implicated in atherosclerosis.
           more ... click here to view the complete list

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.71 RPKM in Nerve - Tibial
Total median expression: 13.82 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.1032-0.284 Picture PostScript Text
3' UTR -534.391924-0.278 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR018629 - Transport_prot_XK

Pfam Domains:
PF09815 - XK-related protein

ModBase Predicted Comparative 3D Structure on Q5GH76
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AY534241 - Homo sapiens XK-related protein 4 mRNA, complete cds.
BC156155 - Synthetic construct Homo sapiens clone IMAGE:100062476, MGC:190526 XK, Kell blood group complex subunit-related family, member 4 (XKR4) mRNA, encodes complete protein.
AB067476 - Homo sapiens mRNA for KIAA1889 protein, partial cds.
BC106028 - Homo sapiens cDNA clone IMAGE:6195417, **** WARNING: chimeric clone ****.
JD116600 - Sequence 97624 from Patent EP1572962.
JD458711 - Sequence 439735 from Patent EP1572962.
JD068720 - Sequence 49744 from Patent EP1572962.
JD448095 - Sequence 429119 from Patent EP1572962.
JD042882 - Sequence 23906 from Patent EP1572962.
JD339321 - Sequence 320345 from Patent EP1572962.
JD113836 - Sequence 94860 from Patent EP1572962.
JD050608 - Sequence 31632 from Patent EP1572962.
JD221512 - Sequence 202536 from Patent EP1572962.
JD288708 - Sequence 269732 from Patent EP1572962.
JD299859 - Sequence 280883 from Patent EP1572962.
JD433568 - Sequence 414592 from Patent EP1572962.
JD380862 - Sequence 361886 from Patent EP1572962.
JD504563 - Sequence 485587 from Patent EP1572962.
JD356048 - Sequence 337072 from Patent EP1572962.
JD543626 - Sequence 524650 from Patent EP1572962.
JD526468 - Sequence 507492 from Patent EP1572962.
JD307395 - Sequence 288419 from Patent EP1572962.
JD059311 - Sequence 40335 from Patent EP1572962.
JD309333 - Sequence 290357 from Patent EP1572962.
JD079975 - Sequence 60999 from Patent EP1572962.
JD493202 - Sequence 474226 from Patent EP1572962.
JD130520 - Sequence 111544 from Patent EP1572962.
JD295025 - Sequence 276049 from Patent EP1572962.
JD538767 - Sequence 519791 from Patent EP1572962.
JD363512 - Sequence 344536 from Patent EP1572962.
JD550915 - Sequence 531939 from Patent EP1572962.
JD089728 - Sequence 70752 from Patent EP1572962.
JD305255 - Sequence 286279 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: KIAA1889, NM_052898, NP_443130, Q5GH76, Q96PZ8, XKR4_HUMAN, XRG4
UCSC ID: uc003xsf.3
RefSeq Accession: NM_052898
Protein: Q5GH76 (aka XKR4_HUMAN)
CCDS: CCDS34893.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_052898.1
exon count: 3CDS single in 3' UTR: no RNA size: 3925
ORF size: 1953CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3773.00frame shift in genome: no % Coverage: 99.59
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.