Human Gene CXCL9 (ENST00000264888.6_7) from GENCODE V47lift37
  Description: C-X-C motif chemokine ligand 9 (from RefSeq NM_002416.3)
Gencode Transcript: ENST00000264888.6_7
Gencode Gene: ENSG00000138755.6_9
Transcript (Including UTRs)
   Position: hg19 chr4:76,922,428-76,928,662 Size: 6,235 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr4:76,924,751-76,928,602 Size: 3,852 Coding Exon Count: 4 

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 (chr4:76,922,428-76,928,662)mRNA (may differ from genome)Protein (125 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CXCL9_HUMAN
DESCRIPTION: RecName: Full=C-X-C motif chemokine 9; AltName: Full=Gamma-interferon-induced monokine; AltName: Full=Monokine induced by interferon-gamma; Short=HuMIG; Short=MIG; AltName: Full=Small-inducible cytokine B9; Flags: Precursor;
FUNCTION: Cytokine that affects the growth, movement, or activation state of cells that participate in immune and inflammatory response. Chemotactic for activated T-cells. Binds to CXCR3.
SUBCELLULAR LOCATION: Secreted.
INDUCTION: By IFNG/IFN-gamma. The induction is enhanced by TNF in dermal fibroblasts and vein endothelial cells.
SIMILARITY: Belongs to the intercrine alpha (chemokine CxC) family.
WEB RESOURCE: Name=Wikipedia; Note=CXCL9 entry; URL="http://en.wikipedia.org/wiki/CXCL9";

-  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: CXCL9
Diseases sorted by gene-association score: endotheliitis (5), sydenham chorea (5), inclusion body myositis (5), mycosis fungoides (4), lichen planus (4), encephalitis (4), malaria (3), opsoclonus-myoclonus syndrome (3), lymphomatoid granulomatosis (3), sarcoidosis 1 (2), scleredema adultorum (2), pulmonary fibrosis, idiopathic (2), endocervicitis (2), myasthenic syndrome, congenital, 7, presynaptic (2), mucinoses (1), multiple sclerosis, disease progression, modifier of (1), non-secretory myeloma (1), carrion's disease (1), pleuropneumonia (1), immunodeficiency with hyper-igm, type 2 (1), chilblain lupus (1), primary syphilis (1)

-  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: 3.50 RPKM in Lung
Total median expression: 25.81 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 -11.0060-0.183 Picture PostScript Text
3' UTR -583.282323-0.251 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
IPR018048 - Chemokine_CXC_CS
IPR001811 - Chemokine_IL8-like_dom

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

SCOP Domains:
54117 - Interleukin 8-like chemokines

ModBase Predicted Comparative 3D Structure on Q07325
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:0005125 cytokine activity
GO:0005515 protein binding
GO:0008009 chemokine activity
GO:0048248 CXCR3 chemokine receptor binding

Biological Process:
GO:0002690 positive regulation of leukocyte chemotaxis
GO:0006935 chemotaxis
GO:0006952 defense response
GO:0006954 inflammatory response
GO:0006955 immune response
GO:0006968 cellular defense response
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007267 cell-cell signaling
GO:0010469 regulation of receptor activity
GO:0010818 T cell chemotaxis
GO:0030816 positive regulation of cAMP metabolic process
GO:0031640 killing of cells of other organism
GO:0032496 response to lipopolysaccharide
GO:0042127 regulation of cell proliferation
GO:0043950 positive regulation of cAMP-mediated signaling
GO:0045663 positive regulation of myoblast differentiation
GO:0051281 positive regulation of release of sequestered calcium ion into cytosol
GO:0051607 defense response to virus
GO:0070098 chemokine-mediated signaling pathway
GO:1901741 positive regulation of myoblast fusion

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0009897 external side of plasma membrane


-  Descriptions from all associated GenBank mRNAs
  BC042178 - Homo sapiens chemokine (C-X-C motif) ligand 9, mRNA (cDNA clone IMAGE:5228247).
BC025745 - Homo sapiens cDNA clone IMAGE:5228354.
BC063122 - Homo sapiens chemokine (C-X-C motif) ligand 9, mRNA (cDNA clone MGC:71972 IMAGE:30370826), complete cds.
BC095396 - Homo sapiens chemokine (C-X-C motif) ligand 9, mRNA (cDNA clone MGC:110863 IMAGE:30336410), complete cds.
LP880244 - Sequence 48 from Patent WO2017181111.
LP882073 - Sequence 15 from Patent WO2017181079.
LQ882908 - Sequence 57 from Patent WO2018160841.
X72755 - H.sapiens Humig mRNA.
JD097782 - Sequence 78806 from Patent EP1572962.
JD082497 - Sequence 63521 from Patent EP1572962.
JD382138 - Sequence 363162 from Patent EP1572962.
JD252774 - Sequence 233798 from Patent EP1572962.
JD350877 - Sequence 331901 from Patent EP1572962.
JD077019 - Sequence 58043 from Patent EP1572962.
JD380144 - Sequence 361168 from Patent EP1572962.
JD296207 - Sequence 277231 from Patent EP1572962.
JD231267 - Sequence 212291 from Patent EP1572962.
JD382877 - Sequence 363901 from Patent EP1572962.
JD556822 - Sequence 537846 from Patent EP1572962.
JD433590 - Sequence 414614 from Patent EP1572962.
JD202166 - Sequence 183190 from Patent EP1572962.
JD054299 - Sequence 35323 from Patent EP1572962.
JD165936 - Sequence 146960 from Patent EP1572962.
JD097021 - Sequence 78045 from Patent EP1572962.
JD539336 - Sequence 520360 from Patent EP1572962.
JD050202 - Sequence 31226 from Patent EP1572962.
JD107254 - Sequence 88278 from Patent EP1572962.
JD465782 - Sequence 446806 from Patent EP1572962.
JD241156 - Sequence 222180 from Patent EP1572962.
JD504608 - Sequence 485632 from Patent EP1572962.
JD197434 - Sequence 178458 from Patent EP1572962.
AK311852 - Homo sapiens cDNA, FLJ92117, highly similar to Homo sapiens chemokine (C-X-C motif) ligand 9 (CXCL9), mRNA.
CU687652 - Synthetic construct Homo sapiens gateway clone IMAGE:100022352 5' read CXCL9 mRNA.
HQ447615 - Synthetic construct Homo sapiens clone IMAGE:100070961; CCSB013382_01 chemokine (C-X-C motif) ligand 9 (CXCL9) gene, encodes complete protein.
KJ891620 - Synthetic construct Homo sapiens clone ccsbBroadEn_01014 CXCL9 gene, encodes complete protein.
AB590958 - Synthetic construct DNA, clone: pFN21AE1613, Homo sapiens CXCL9 gene for chemokine (C-X-C motif) ligand 9, without stop codon, in Flexi system.
JD247276 - Sequence 228300 from Patent EP1572962.
LQ927230 - Sequence 7 from Patent WO2018191660.
MP202734 - Sequence 45 from Patent WO2019090263.
MB143797 - JP 2019515670-A/8: METHODS FOR MONITORING AND TREATING CANCER.
MB423121 - JP 2019521641-A/8: METHODS FOR MONITORING AND TREATING CANCER.
MP584558 - Sequence 57 from Patent WO2020081767.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q07325 (Reactome details) participates in the following event(s):

R-HSA-374248 Receptor CXCR3 binds ligands CXCL9 to 11
R-HSA-749454 The Ligand:GPCR:Gi complex dissociates
R-HSA-749456 Liganded Gi-activating GPCRs bind inactive heterotrimeric G-protein Gi
R-HSA-380073 Liganded Gi-activating GPCR acts as a GEF for Gi
R-HSA-380108 Chemokine receptors bind chemokines
R-HSA-418594 G alpha (i) signalling events
R-HSA-375276 Peptide ligand-binding receptors
R-HSA-388396 GPCR downstream signalling
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-372790 Signaling by GPCR
R-HSA-500792 GPCR ligand binding
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: CMK, CXCL9_HUMAN, ENST00000264888.1, ENST00000264888.2, ENST00000264888.3, ENST00000264888.4, ENST00000264888.5, MIG, NM_002416, Q07325, Q503B4, SCYB9, uc317hwk.1, uc317hwk.2
UCSC ID: ENST00000264888.6_7
RefSeq Accession: NM_002416.3
Protein: Q07325 (aka CXCL9_HUMAN)

-  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.