Human Gene CXCL3 (ENST00000296026.4_7) from GENCODE V47lift37
  Description: C-X-C motif chemokine ligand 3 (from RefSeq NM_002090.3)
Gencode Transcript: ENST00000296026.4_7
Gencode Gene: ENSG00000163734.4_8
Transcript (Including UTRs)
   Position: hg19 chr4:74,902,306-74,904,406 Size: 2,101 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr4:74,902,979-74,904,328 Size: 1,350 Coding Exon Count: 4 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:74,902,306-74,904,406)mRNA (may differ from genome)Protein (107 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  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


-  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: 7.02 RPKM in Lung
Total median expression: 32.17 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 -19.0078-0.244 Picture PostScript Text
3' UTR -161.40673-0.240 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
IPR001089 - Chemokine_CXC

Pfam Domains:
PF00048 - Small cytokines (intecrine/chemokine), interleukin-8 like

SCOP Domains:
54117 - Interleukin 8-like chemokines

ModBase Predicted Comparative 3D Structure on Q6LD32
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 Details    
 Gene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008009 chemokine activity

Biological Process:
GO:0006955 immune response
GO:0060326 cell chemotaxis

Cellular Component:
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  KJ891303 - Synthetic construct Homo sapiens clone ccsbBroadEn_00697 CXCL3 gene, encodes complete protein.
LQ882876 - Sequence 25 from Patent WO2018160841.
BC016308 - Homo sapiens chemokine (C-X-C motif) ligand 3, mRNA (cDNA clone MGC:22505 IMAGE:4070983), complete cds.
M36821 - Human cytokine (GRO-gamma) mRNA, complete cds.
BC065743 - Homo sapiens chemokine (C-X-C motif) ligand 3, mRNA (cDNA clone MGC:72105 IMAGE:4717346), complete cds.
JD359078 - Sequence 340102 from Patent EP1572962.
X53800 - Human mRNA for macrophage inflammatory protein-2beta (MIP2beta).
JD493552 - Sequence 474576 from Patent EP1572962.
JD499610 - Sequence 480634 from Patent EP1572962.
JD246036 - Sequence 227060 from Patent EP1572962.
JD243653 - Sequence 224677 from Patent EP1572962.
JD237901 - Sequence 218925 from Patent EP1572962.
AK311367 - Homo sapiens cDNA, FLJ18409.
JD036540 - Sequence 17564 from Patent EP1572962.
JD429175 - Sequence 410199 from Patent EP1572962.
EU831482 - Synthetic construct Homo sapiens clone HAIB:100066511; DKFZo008G1217 chemokine (C-X-C motif) ligand 3 protein (CXCL3) gene, encodes complete protein.
EU831569 - Synthetic construct Homo sapiens clone HAIB:100066598; DKFZo004G1218 chemokine (C-X-C motif) ligand 3 protein (CXCL3) gene, encodes complete protein.
EU176452 - Synthetic construct Homo sapiens clone IMAGE:100006558; FLH263546.01X; RZPDo839B0984D chemokine (C-X-C motif) ligand 3 (CXCL3) gene, encodes complete protein.
AB590406 - Synthetic construct DNA, clone: pFN21AE1321, Homo sapiens CXCL3 gene for chemokine (C-X-C motif) ligand 3, without stop codon, in Flexi system.
AK307064 - Homo sapiens cDNA, FLJ97012.
JD190417 - Sequence 171441 from Patent EP1572962.
MP584526 - Sequence 25 from Patent WO2020081767.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000296026.1, ENST00000296026.2, ENST00000296026.3, MGSA gamma , NM_002090, Q6LD32, Q6LD32_HUMAN, uc317lqm.1, uc317lqm.2
UCSC ID: ENST00000296026.4_7
RefSeq Accession: NM_002090.3
Protein: Q6LD32

-  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.