Human Gene CCR5 (ENST00000292303.5_4) from GENCODE V47lift37
  Description: C-C motif chemokine receptor 5, transcript variant C (from RefSeq NM_001394783.1)
Gencode Transcript: ENST00000292303.5_4
Gencode Gene: ENSG00000160791.14_8
Transcript (Including UTRs)
   Position: hg19 chr3:46,412,437-46,417,697 Size: 5,261 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr3:46,414,394-46,415,452 Size: 1,059 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:46,412,437-46,417,697)mRNA (may differ from genome)Protein (352 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MalacardsMGIPubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q38L21_HUMAN
DESCRIPTION: SubName: Full=C-C chemokine receptor type 5; SubName: Full=C-C motif chemokine receptor 5 A159A variant; SubName: Full=C-C motif chemokine receptor 5 I124I variant; SubName: Full=C-C motif chemokine receptor 5 I237I variant; SubName: Full=Chemokine (C-C motif) receptor 5, isoform CRA_a; SubName: Full=cDNA FLJ78003, highly similar to Homo sapiens chemokine (C-C motif) receptor 5, mRNA;
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.

-  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: CCR5
Diseases sorted by gene-association score: west nile virus* (603), diabetes mellitus, insulin-dependent, 22* (569), hepatitis c virus* (279), acquired immunodeficiency syndrome (27), hiv-1 (26), susceptibility/resistance to hiv infection* (25), plague (23), human immunodeficiency virus infectious disease (14), tick-borne encephalitis (14), immune-complex glomerulonephritis (13), viral infectious disease (12), secondary progressive multiple sclerosis (11), whiplash (10), bubonic plague (9), pulmonary sarcoidosis (9), crescentic glomerulonephritis (9), encephalitis (8), yellow fever (7), cow milk allergy (7), chagas disease (7), optic neuritis (7), cytomegalovirus retinitis (7), avoidant personality disorder (7), primary immunodeficiency disease (6), chronic nk-cell lymphocytosis (6), wegener granulomatosis (6), orofacial granulomatosis (6), oral lichen planus (6), toxoplasmosis (5), mucocutaneous leishmaniasis (5), oligoarticular juvenile idiopathic arthritis (5), kaposi sarcoma (4), diabetes mellitus, insulin-dependent (3), multiple sclerosis, disease progression, modifier of (3), central nervous system disease (1), myocardial infarction (1), behcet syndrome (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D004997 Ethinyl Estradiol
  • C093973 2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one
  • D001564 Benzo(a)pyrene
  • D019821 Simvastatin
  • C513867 2,2-dichloro-1-(triphenylphosphonio)vinyl formamide perchlorate
  • C014024 2,4,5,2',4',5'-hexachlorobiphenyl
  • C045305 2,4-dinitrofluorobenzene sulfonic acid
  • D015081 2-Naphthylamine
  • C030682 3-chlorophenol
  • C438583 4-((4-bromophenyl)-(ethoxyimino)methyl)-1'-((2,4-dimethyl-3-pyridinyl)carbonyl)-4'-methyl-1,4'-bipiperidine N-oxide
          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: 4.02 RPKM in Spleen
Total median expression: 21.76 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.7054-0.180 Picture PostScript Text
3' UTR -708.202245-0.315 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
IPR000276 - 7TM_GPCR_Rhodpsn
IPR002240 - Chemokine_CCR5
IPR000355 - Chemokine_rcpt
IPR017452 - GPCR_Rhodpsn_supfam

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)
PF10320 - Serpentine type 7TM GPCR chemoreceptor Srsx

SCOP Domains:
81321 - Family A G protein-coupled receptor-like

ModBase Predicted Comparative 3D Structure on Q38L21
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 orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity
GO:0004950 chemokine receptor activity
GO:0016493 C-C chemokine receptor activity
GO:0019957 C-C chemokine binding

Biological Process:
GO:0006935 chemotaxis
GO:0006952 defense response
GO:0006954 inflammatory response
GO:0006955 immune response
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0070098 chemokine-mediated signaling pathway
GO:2000110 negative regulation of macrophage apoptotic process

Cellular Component:
GO:0009897 external side of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK314882 - Homo sapiens cDNA, FLJ95783.
BD174676 - Ribozyme expression system.
AK292132 - Homo sapiens cDNA FLJ78003 complete cds, highly similar to Homo sapiens chemokine (C-C motif) receptor 5, mRNA.
LP880260 - Sequence 64 from Patent WO2017181111.
LP882091 - Sequence 33 from Patent WO2017181079.
U54994 - Human CC chemokine receptor 5 (CCR5) mRNA, complete cds.
JD436351 - Sequence 417375 from Patent EP1572962.
BC038398 - Homo sapiens chemokine (C-C motif) receptor 5, mRNA (cDNA clone MGC:34624 IMAGE:5186388), complete cds.
U57840 - Human CC chemokine receptor 5 mRNA, complete cds.
AB464483 - Synthetic construct DNA, clone: pF1KB9837, Homo sapiens CCR5 gene for chemokine (C-C motif) receptor 5, without stop codon, in Flexi system.
AF011500 - Homo sapiens isolate HtCCR5-104 CCR5 receptor (CCR5) mRNA, partial cds.
AF011501 - Homo sapiens isolate InCCR5-45c CCR5 receptor (CCR5) mRNA, partial cds.
AF011502 - Homo sapiens isolate InCCR5-463 CCR5 receptor (CCR5) mRNA, partial cds.
AF011503 - Homo sapiens isolate InCCR5-467 CCR5 receptor (CCR5) mRNA, partial cds.
AF011504 - Homo sapiens isolate InCCR5-46 CCR5 receptor (CCR5) mRNA, partial cds.
AF011505 - Homo sapiens isolate InCCR5-71a CCR5 receptor (CCR5) mRNA, partial cds.
AF011506 - Homo sapiens isolate InCCR5-71b CCR5 receptor (CCR5) mRNA, partial cds.
AF011507 - Homo sapiens isolate InCCR5-72a CCR5 receptor (CCR5) mRNA, partial cds.
AF011508 - Homo sapiens isolate KeCCR5-111 CCR5 receptor (CCR5) mRNA, partial cds.
AF011509 - Homo sapiens isolate KeCCR5-116 CCR5 receptor (CCR5) mRNA, partial cds.
AF011510 - Homo sapiens isolate KeCCR5-3a CCR5 receptor (CCR5) mRNA, partial cds.
AF011511 - Homo sapiens isolate KeCCR5-3b CCR5 receptor (CCR5) mRNA, partial cds.
AF011512 - Homo sapiens isolate MwCCR5-107 CCR5 receptor (CCR5) mRNA, partial cds.
AF011513 - Homo sapiens isolate MwCCR5-1553 CCR5 receptor (CCR5) mRNA, partial cds.
AF011514 - Homo sapiens isolate MwCCR5-1555 CCR5 receptor (CCR5) mRNA, partial cds.
AF011515 - Homo sapiens isolate MwCCR5-1567 CCR5 receptor (CCR5) mRNA, partial cds.
AF011516 - Homo sapiens isolate MwCCR5-1568 CCR5 receptor (CCR5) mRNA, partial cds.
AF011517 - Homo sapiens isolate RwCCR5-105 CCR5 receptor (CCR5) mRNA, partial cds.
AF011518 - Homo sapiens isolate ThCCR5-113 CCR5 receptor (CCR5) mRNA, partial cds.
AF011519 - Homo sapiens isolate ThCCR5-2 CCR5 receptor (CCR5) mRNA, partial cds.
AF011520 - Homo sapiens isolate ThCCR5-5 CCR5 receptor (CCR5) mRNA, partial cds.
AF011521 - Homo sapiens isolate ThCCR5-6 CCR5 receptor (CCR5) mRNA, partial cds.
AF011522 - Homo sapiens isolate TzCCR5-178a CCR5 receptor (CCR5) mRNA, partial cds.
AF011523 - Homo sapiens isolate TzCCR5-178b CCR5 receptor (CCR5) mRNA, partial cds.
AF011524 - Homo sapiens isolate TzCCR5-179 CCR5 receptor (CCR5) mRNA, partial cds.
AF011525 - Homo sapiens isolate TzCCR5-181a CCR5 receptor (CCR5) mRNA, partial cds.
AF011526 - Homo sapiens isolate UgCCR5-144a CCR5 receptor (CCR5) mRNA, partial cds.
AF011527 - Homo sapiens isolate UgCCR5-144b CCR5 receptor (CCR5) mRNA, partial cds.
AF011528 - Homo sapiens isolate UgCCR5-144c CCR5 receptor (CCR5) mRNA, partial cds.
AF011529 - Homo sapiens isolate UgCCR5-145a CCR5 receptor (CCR5) mRNA, partial cds.
AF011530 - Homo sapiens isolate UgCCR5-145b CCR5 receptor (CCR5) mRNA, partial cds.
AF011531 - Homo sapiens isolate UgCCR5-145c CCR5 receptor (CCR5) mRNA, partial cds.
AF011532 - Homo sapiens isolate UgCCR5-145d CCR5 receptor (CCR5) mRNA, partial cds.
AF011533 - Homo sapiens isolate ZwCCR5-110 CCR5 receptor (CCR5) mRNA, partial cds.
AF011534 - Homo sapiens isolate ZwCCR5-112 CCR5 receptor (CCR5) mRNA, partial cds.
AF011535 - Homo sapiens isolate ZwCCR5-13 CCR5 receptor (CCR5) mRNA, partial cds.
AF011536 - Homo sapiens isolate ZwCCR5-14 CCR5 receptor (CCR5) mRNA, partial cds.
AF011537 - Homo sapiens isolate ZwCCR5-7 CCR5 receptor (CCR5) mRNA, partial cds.
BD137364 - Ribozyme capable of inhibiting expression of CCR5 receptor.
JD068535 - Sequence 49559 from Patent EP1572962.
JD203047 - Sequence 184071 from Patent EP1572962.
JD355756 - Sequence 336780 from Patent EP1572962.
JD288264 - Sequence 269288 from Patent EP1572962.
JD083429 - Sequence 64453 from Patent EP1572962.
JD317590 - Sequence 298614 from Patent EP1572962.
JD299629 - Sequence 280653 from Patent EP1572962.
JD244838 - Sequence 225862 from Patent EP1572962.
JD551510 - Sequence 532534 from Patent EP1572962.
JD538796 - Sequence 519820 from Patent EP1572962.
JD312852 - Sequence 293876 from Patent EP1572962.
JD442113 - Sequence 423137 from Patent EP1572962.
JD166076 - Sequence 147100 from Patent EP1572962.
JD282825 - Sequence 263849 from Patent EP1572962.
JD524242 - Sequence 505266 from Patent EP1572962.
JD310335 - Sequence 291359 from Patent EP1572962.
JD459846 - Sequence 440870 from Patent EP1572962.
JD441096 - Sequence 422120 from Patent EP1572962.
JD044212 - Sequence 25236 from Patent EP1572962.
JD143361 - Sequence 124385 from Patent EP1572962.
JD361012 - Sequence 342036 from Patent EP1572962.
JD482808 - Sequence 463832 from Patent EP1572962.
JD045057 - Sequence 26081 from Patent EP1572962.
JD341327 - Sequence 322351 from Patent EP1572962.
JD244726 - Sequence 225750 from Patent EP1572962.
JD535188 - Sequence 516212 from Patent EP1572962.
JD186478 - Sequence 167502 from Patent EP1572962.
JD559936 - Sequence 540960 from Patent EP1572962.
JD170953 - Sequence 151977 from Patent EP1572962.
JD036953 - Sequence 17977 from Patent EP1572962.
JD097983 - Sequence 79007 from Patent EP1572962.
JD062607 - Sequence 43631 from Patent EP1572962.
JD488404 - Sequence 469428 from Patent EP1572962.
JD160160 - Sequence 141184 from Patent EP1572962.
JD186364 - Sequence 167388 from Patent EP1572962.
JD051622 - Sequence 32646 from Patent EP1572962.
JD413087 - Sequence 394111 from Patent EP1572962.
JD313807 - Sequence 294831 from Patent EP1572962.
JD326449 - Sequence 307473 from Patent EP1572962.
JD313536 - Sequence 294560 from Patent EP1572962.
JD087688 - Sequence 68712 from Patent EP1572962.
JD088428 - Sequence 69452 from Patent EP1572962.
JD219579 - Sequence 200603 from Patent EP1572962.
JD252714 - Sequence 233738 from Patent EP1572962.
JD122320 - Sequence 103344 from Patent EP1572962.
JD460342 - Sequence 441366 from Patent EP1572962.
JD435241 - Sequence 416265 from Patent EP1572962.
JD043930 - Sequence 24954 from Patent EP1572962.
JD177376 - Sequence 158400 from Patent EP1572962.
JD348736 - Sequence 329760 from Patent EP1572962.
MB143806 - JP 2019515670-A/17: METHODS FOR MONITORING AND TREATING CANCER.
MB423129 - JP 2019521641-A/16: METHODS FOR MONITORING AND TREATING CANCER.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_IL12Pathway - IL12 and Stat4 Dependent Signaling Pathway in Th1 Development
h_tcapoptosisPathway - HIV Induced T Cell Apoptosis
h_Ccr5Pathway - Pertussis toxin-insensitive CCR5 Signaling in Macrophage
h_no2il12Pathway - NO2-dependent IL 12 Pathway in NK cells
h_nktPathway - Selective expression of chemokine receptors during T-cell polarization

-  Other Names for This Gene
  Alternate Gene Symbols: CCR5 , ENST00000292303.1, ENST00000292303.2, ENST00000292303.3, ENST00000292303.4, hCG_15321 , NM_001394783, Q38L21, Q38L21_HUMAN, uc317lan.1, uc317lan.2
UCSC ID: ENST00000292303.5_4
RefSeq Accession: NM_001394783.1
Protein: Q38L21

-  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.