Human Gene CXCL10 (uc003hjl.4) Description and Page Index
  Description: Homo sapiens chemokine (C-X-C motif) ligand 10 (CXCL10), mRNA.
RefSeq Summary (NM_001565): This antimicrobial gene encodes a chemokine of the CXC subfamily and ligand for the receptor CXCR3. Binding of this protein to CXCR3 results in pleiotropic effects, including stimulation of monocytes, natural killer and T-cell migration, and modulation of adhesion molecule expression. [provided by RefSeq, Sep 2014]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR5189655.136912.1, BC010954.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1966682, SAMEA2147920 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000306602.3/ ENSP00000305651.1 Protein has antimicrobial activity :: PMID: 12949249 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr4:76,942,269-76,944,689 Size: 2,421 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr4:76,943,083-76,944,584 Size: 1,502 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:76,942,269-76,944,689)mRNA (may differ from genome)Protein (98 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CXL10_HUMAN
DESCRIPTION: RecName: Full=C-X-C motif chemokine 10; AltName: Full=10 kDa interferon gamma-induced protein; Short=Gamma-IP10; Short=IP-10; AltName: Full=Small-inducible cytokine B10; Contains: RecName: Full=CXCL10(1-73); Flags: Precursor;
FUNCTION: Chemotactic for monocytes and T-lymphocytes. Binds to CXCR3.
SUBCELLULAR LOCATION: Secreted.
INDUCTION: By IFNG/IFN-gamma. A diverse population of cell types rapidly increases transcription of mRNA encoding this protein. This suggests that gamma-induced protein may be a key mediator of the IFNG/IFN-gamma response.
PTM: CXCL10(1-73) is produced by proteolytic cleavage after secretion from keratinocytes.
MASS SPECTROMETRY: Mass=8641.8; Method=Electrospray; Range=22-98; Source=PubMed:11559369;
SIMILARITY: Belongs to the intercrine alpha (chemokine CxC) family.
WEB RESOURCE: Name=Wikipedia; Note=CXCL10 entry; URL="http://en.wikipedia.org/wiki/CXCL10";

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CXCL10
CDC HuGE Published Literature: CXCL10

-  MalaCards Disease Associations
  MalaCards Gene Search: CXCL10
Diseases sorted by gene-association score: endotheliitis (19), paracoccidioidomycosis (14), severe acute respiratory syndrome (14), avian influenza (13), sydenham chorea (13), acrodermatitis (12), viral encephalitis (11), encephalitis (11), cryoglobulinemia (11), japanese encephalitis (10), crimean-congo hemorrhagic fever (8), opsoclonus-myoclonus syndrome (8), acute cervicitis (8), spotted fever (8), allergic encephalomyelitis (8), acute pyelonephritis (7), viral meningitis (7), alopecia areata (7), tick-borne encephalitis (7), invasive aspergillosis (7), stromal keratitis (7), secondary progressive multiple sclerosis (6), neuritis (6), demyelinating disease (6), rabies (6), viral infectious disease (6), cryptosporidiosis (6), hepatitis c (5), primary peritoneal carcinoma (5), fungal meningitis (5), apple allergy (5), multiple sclerosis, disease progression, modifier of (5), japanese spotted fever (5), tendinosis (5), asymptomatic neurosyphilis (5), lymphoproliferative syndrome 2 (4), central nervous system tuberculosis (4), carrion's disease (4), uveitis (3), tertiary neurosyphilis (3), mycosis fungoides (3), malaria (3), leprosy (2), pulmonary fibrosis, idiopathic (1), primary bacterial infectious disease (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: 3.45 RPKM in Lung
Total median expression: 27.93 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 -25.30105-0.241 Picture PostScript Text
3' UTR -199.05814-0.245 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

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1LV9
- NMR

1O7Y
- X-ray

1O7Z
- X-ray
To conserve bandwidth, only the images from the first 3 structures are shown.
1O80 - X-ray


ModBase Predicted Comparative 3D Structure on P02778
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
  Molecular Function:
GO:0005102 receptor binding
GO:0005125 cytokine activity
GO:0005515 protein binding
GO:0008009 chemokine activity
GO:0008201 heparin binding
GO:0008603 cAMP-dependent protein kinase regulator 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:0007165 signal transduction
GO:0007166 cell surface receptor signaling pathway
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007267 cell-cell signaling
GO:0007517 muscle organ development
GO:0008015 blood circulation
GO:0008284 positive regulation of cell proliferation
GO:0009409 response to cold
GO:0009615 response to virus
GO:0010332 response to gamma radiation
GO:0010469 regulation of receptor activity
GO:0010818 T cell chemotaxis
GO:0010819 regulation of T cell chemotaxis
GO:0010996 response to auditory stimulus
GO:0016525 negative regulation of angiogenesis
GO:0019221 cytokine-mediated signaling pathway
GO:0030335 positive regulation of cell migration
GO:0030816 positive regulation of cAMP metabolic process
GO:0031640 killing of cells of other organism
GO:0032496 response to lipopolysaccharide
GO:0033280 response to vitamin D
GO:0034605 cellular response to heat
GO:0042118 endothelial cell activation
GO:0042127 regulation of cell proliferation
GO:0043950 positive regulation of cAMP-mediated signaling
GO:0045662 negative regulation of myoblast differentiation
GO:0045859 regulation of protein kinase activity
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
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:0071222 cellular response to lipopolysaccharide
GO:0090026 positive regulation of monocyte chemotaxis
GO:1901509 regulation of endothelial tube morphogenesis
GO:1901740 negative regulation of myoblast fusion
GO:2000406 positive regulation of T cell migration

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


-  Descriptions from all associated GenBank mRNAs
  BC010954 - Homo sapiens chemokine (C-X-C motif) ligand 10, mRNA (cDNA clone MGC:13622 IMAGE:4274617), complete cds.
LP880246 - Sequence 50 from Patent WO2017181111.
LP882075 - Sequence 17 from Patent WO2017181079.
LQ878891 - Sequence 6 from Patent WO2018154075.
LQ882910 - Sequence 59 from Patent WO2018160841.
X02530 - Homo sapiens mRNA for gamma-interferon inducible early response polypeptide precursor.
JD447430 - Sequence 428454 from Patent EP1572962.
JD434711 - Sequence 415735 from Patent EP1572962.
JD355123 - Sequence 336147 from Patent EP1572962.
JD246595 - Sequence 227619 from Patent EP1572962.
JD438949 - Sequence 419973 from Patent EP1572962.
KJ897060 - Synthetic construct Homo sapiens clone ccsbBroadEn_06454 CXCL10 gene, encodes complete protein.
DQ892786 - Synthetic construct clone IMAGE:100005416; FLH189719.01X; RZPDo839A0675D chemokine (C-X-C motif) ligand 10 (CXCL10) gene, encodes complete protein.
DQ896033 - Synthetic construct Homo sapiens clone IMAGE:100010493; FLH189715.01L; RZPDo839A0665D chemokine (C-X-C motif) ligand 10 (CXCL10) gene, encodes complete protein.
AB529178 - Synthetic construct DNA, clone: pF1KB6739, Homo sapiens CXCL10 gene for chemokine (C-X-C motif) ligand 10, without stop codon, in Flexi system.
JD306789 - Sequence 287813 from Patent EP1572962.
JD468160 - Sequence 449184 from Patent EP1572962.
LQ927254 - Sequence 31 from Patent WO2018191660.
MP067521 - Sequence 25 from Patent WO2018232288.
MP202736 - Sequence 47 from Patent WO2019090263.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04060 - Cytokine-cytokine receptor interaction
hsa04062 - Chemokine signaling pathway
hsa04620 - Toll-like receptor signaling pathway
hsa04622 - RIG-I-like receptor signaling pathway
hsa04623 - Cytosolic DNA-sensing pathway

Reactome (by CSHL, EBI, and GO)

Protein P02778 (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-6783783 Interleukin-10 signaling
R-HSA-418594 G alpha (i) signalling events
R-HSA-375276 Peptide ligand-binding receptors
R-HSA-449147 Signaling by Interleukins
R-HSA-388396 GPCR downstream signalling
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-372790 Signaling by GPCR
R-HSA-500792 GPCR ligand binding
R-HSA-168256 Immune System
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: CXL10_HUMAN, INP10, NM_001565, NP_001556, P02778, Q96QJ5, SCYB10
UCSC ID: uc003hjl.4
RefSeq Accession: NM_001565
Protein: P02778 (aka CXL10_HUMAN)
CCDS: CCDS43240.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001565.3
exon count: 4CDS single in 3' UTR: no RNA size: 1227
ORF size: 297CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 782.00frame shift in genome: no % Coverage: 99.10
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.