Human Gene XPR1 (ENST00000367590.9_4) from GENCODE V47lift37
  Description: xenotropic and polytropic retrovirus receptor 1, transcript variant 1 (from RefSeq NM_004736.4)
Gencode Transcript: ENST00000367590.9_4
Gencode Gene: ENSG00000143324.14_8
Transcript (Including UTRs)
   Position: hg19 chr1:180,601,158-180,859,415 Size: 258,258 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr1:180,601,338-180,853,202 Size: 251,865 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:180,601,158-180,859,415)mRNA (may differ from genome)Protein (696 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: XPR1_HUMAN
DESCRIPTION: RecName: Full=Xenotropic and polytropic retrovirus receptor 1; AltName: Full=Protein SYG1 homolog; AltName: Full=Xenotropic and polytropic murine leukemia virus receptor X3; Short=X-receptor;
FUNCTION: May function in G-protein coupled signal transduction (By similarity). Potential receptor for xenotropic and polytropic murine leukemia retroviruses.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein (Probable).
TISSUE SPECIFICITY: Widely expressed. Detected in spleen, lymph node, thymus, leukocytes, bone marrow, heart, kidney, pancreas and skeletal muscle.
DEVELOPMENTAL STAGE: Expressed in fetal liver.
SIMILARITY: Belongs to the SYG1 (TC 2.A.94) family.
SIMILARITY: Contains 1 EXS domain.
SIMILARITY: Contains 1 SPX domain.
CAUTION: It is unclear whether its ability to act as a receptor for xenotropic and polytropic murine leukemia retroviruses is relevant in vivo and whether such viruses can infect human.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: XPR1
Diseases sorted by gene-association score: basal ganglia calcification, idiopathic, 6* (1331), primary familial brain calcification* (213), basal ganglia calcification (33), nodular malignant melanoma (16)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 8.84 RPKM in Heart - Left Ventricle
Total median expression: 189.14 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -75.00180-0.417 Picture PostScript Text
3' UTR -1517.906213-0.244 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
IPR004342 - EXS_C
IPR004331 - SPX_N

Pfam Domains:
PF03105 - SPX domain
PF03124 - EXS family

ModBase Predicted Comparative 3D Structure on Q9UBH6
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 orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000822 inositol hexakisphosphate binding
GO:0001618 virus receptor activity
GO:0004888 transmembrane signaling receptor activity
GO:0004930 G-protein coupled receptor activity
GO:0015114 phosphate ion transmembrane transporter activity
GO:0015562 efflux transmembrane transporter activity
GO:0038023 signaling receptor activity

Biological Process:
GO:0007186 G-protein coupled receptor signaling pathway
GO:0009615 response to virus
GO:0030643 cellular phosphate ion homeostasis
GO:0035435 phosphate ion transmembrane transport
GO:0046718 viral entry into host cell

Cellular Component:
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031226 intrinsic component of plasma membrane


-  Descriptions from all associated GenBank mRNAs
  BC028576 - Homo sapiens cDNA clone IMAGE:4827651, containing frame-shift errors.
AK309750 - Homo sapiens cDNA, FLJ99791.
BC041142 - Homo sapiens xenotropic and polytropic retrovirus receptor, mRNA (cDNA clone MGC:47521 IMAGE:5582839), complete cds.
AF089744 - Homo sapiens xenotropic and polytropic murine leukemia virus receptor (X3) mRNA, complete cds.
AF099082 - Homo sapiens xenotropic and polytropic murine retrovirus receptor (XPR1) mRNA, complete cds.
CU691970 - Synthetic construct Homo sapiens gateway clone IMAGE:100021210 5' read XPR1 mRNA.
KJ892715 - Synthetic construct Homo sapiens clone ccsbBroadEn_02109 XPR1 gene, encodes complete protein.
AF115389 - Homo sapiens SYG1 protein (SYG1) mRNA, complete cds.
JD309134 - Sequence 290158 from Patent EP1572962.
JD523711 - Sequence 504735 from Patent EP1572962.
AL133058 - Homo sapiens mRNA; cDNA DKFZp434K0615 (from clone DKFZp434K0615).
AL137583 - Homo sapiens mRNA; cDNA DKFZp434F1310 (from clone DKFZp434F1310).
AK074789 - Homo sapiens cDNA FLJ90308 fis, clone NT2RP2000818, highly similar to Homo sapiens xenotropic and polytropic murine leukemia virus receptor (X3) mRNA.
JD555378 - Sequence 536402 from Patent EP1572962.
JD555576 - Sequence 536600 from Patent EP1572962.
JD373495 - Sequence 354519 from Patent EP1572962.
JD268055 - Sequence 249079 from Patent EP1572962.
JD409396 - Sequence 390420 from Patent EP1572962.
JD126073 - Sequence 107097 from Patent EP1572962.
LF205405 - JP 2014500723-A/12908: Polycomb-Associated Non-Coding RNAs.
LF320147 - JP 2014500723-A/127650: Polycomb-Associated Non-Coding RNAs.
JD339528 - Sequence 320552 from Patent EP1572962.
LF320146 - JP 2014500723-A/127649: Polycomb-Associated Non-Coding RNAs.
JD323355 - Sequence 304379 from Patent EP1572962.
JD171445 - Sequence 152469 from Patent EP1572962.
JD062184 - Sequence 43208 from Patent EP1572962.
JD298816 - Sequence 279840 from Patent EP1572962.
JD304062 - Sequence 285086 from Patent EP1572962.
JD275101 - Sequence 256125 from Patent EP1572962.
JD566172 - Sequence 547196 from Patent EP1572962.
JD297111 - Sequence 278135 from Patent EP1572962.
JD503939 - Sequence 484963 from Patent EP1572962.
JD298772 - Sequence 279796 from Patent EP1572962.
JD323812 - Sequence 304836 from Patent EP1572962.
LF320145 - JP 2014500723-A/127648: Polycomb-Associated Non-Coding RNAs.
LF320144 - JP 2014500723-A/127647: Polycomb-Associated Non-Coding RNAs.
JD530164 - Sequence 511188 from Patent EP1572962.
AK056306 - Homo sapiens cDNA FLJ31744 fis, clone NT2RI2007277.
JD229742 - Sequence 210766 from Patent EP1572962.
JD536187 - Sequence 517211 from Patent EP1572962.
JD376050 - Sequence 357074 from Patent EP1572962.
JD542829 - Sequence 523853 from Patent EP1572962.
JD542830 - Sequence 523854 from Patent EP1572962.
JD542831 - Sequence 523855 from Patent EP1572962.
JD542832 - Sequence 523856 from Patent EP1572962.
JD344147 - Sequence 325171 from Patent EP1572962.
JD498424 - Sequence 479448 from Patent EP1572962.
AK023131 - Homo sapiens cDNA FLJ13069 fis, clone NT2RP3001752.
LF320143 - JP 2014500723-A/127646: Polycomb-Associated Non-Coding RNAs.
LF320142 - JP 2014500723-A/127645: Polycomb-Associated Non-Coding RNAs.
AB075495 - Homo sapiens neuroblastoma cDNA, clone:Nbla00181, full insert sequence.
LF320141 - JP 2014500723-A/127644: Polycomb-Associated Non-Coding RNAs.
U79279 - Human clone 23774 mRNA sequence.
LF320140 - JP 2014500723-A/127643: Polycomb-Associated Non-Coding RNAs.
MA440982 - JP 2018138019-A/12908: Polycomb-Associated Non-Coding RNAs.
MA555724 - JP 2018138019-A/127650: Polycomb-Associated Non-Coding RNAs.
MA555723 - JP 2018138019-A/127649: Polycomb-Associated Non-Coding RNAs.
MA555722 - JP 2018138019-A/127648: Polycomb-Associated Non-Coding RNAs.
MA555721 - JP 2018138019-A/127647: Polycomb-Associated Non-Coding RNAs.
MA555720 - JP 2018138019-A/127646: Polycomb-Associated Non-Coding RNAs.
MA555719 - JP 2018138019-A/127645: Polycomb-Associated Non-Coding RNAs.
MA555718 - JP 2018138019-A/127644: Polycomb-Associated Non-Coding RNAs.
MA555717 - JP 2018138019-A/127643: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000367590.1, ENST00000367590.2, ENST00000367590.3, ENST00000367590.4, ENST00000367590.5, ENST00000367590.6, ENST00000367590.7, ENST00000367590.8, NM_004736, O95719, Q7L8K9, Q8IW20, Q9NT19, Q9UBH6, Q9UFB9, S53A1_HUMAN, SLC53A1 , SYG1, uc318gaw.1, uc318gaw.2, X3, XPR1
UCSC ID: ENST00000367590.9_4
RefSeq Accession: NM_004736.4
Protein: Q9UBH6 (aka XPR1_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene XPR1:
bgc (Primary Familial Brain Calcification)

-  Gene Model Information
  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.