Human Gene CXCL11 (ENST00000306621.8_7) from GENCODE V47lift37
  Description: C-X-C motif chemokine ligand 11, transcript variant 1 (from RefSeq NM_005409.5)
Gencode Transcript: ENST00000306621.8_7
Gencode Gene: ENSG00000169248.13_11
Transcript (Including UTRs)
   Position: hg19 chr4:76,954,835-76,957,223 Size: 2,389 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr4:76,955,946-76,957,140 Size: 1,195 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 (chr4:76,954,835-76,957,223)mRNA (may differ from genome)Protein (94 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CXL11_HUMAN
DESCRIPTION: RecName: Full=C-X-C motif chemokine 11; AltName: Full=Beta-R1; AltName: Full=H174; AltName: Full=Interferon gamma-inducible protein 9; Short=IP-9; AltName: Full=Interferon-inducible T-cell alpha chemoattractant; Short=I-TAC; AltName: Full=Small-inducible cytokine B11; Flags: Precursor;
FUNCTION: Chemotactic for interleukin-activated T-cells but not unstimulated T-cells, neutrophils or monocytes. Induces calcium release in activated T-cells. Binds to CXCR3. May play an important role in CNS diseases which involve T-cell recruitment. May play a role in skin immune responses.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: High levels in peripheral blood leukocytes, pancreas and liver astrocytes. Moderate levels in thymus, spleen and lung. Low levels in placenta, prostate and small intestine. Also found in epidermal basal layer keratinocytes in skin disorders.
INDUCTION: By IFNG/IFN-gamma and IFNB1/IFN-beta. Induction by IFNG/IFN-gamma is enhanced by TNF in monocytes, dermal fibroblasts and endothelial cells, and by IL1/interleukin-1 in astrocytes.
MASS SPECTROMETRY: Mass=8303; Method=MALDI; Range=22-94; Source=PubMed:10233762;
SIMILARITY: Belongs to the intercrine alpha (chemokine CxC) family.
SEQUENCE CAUTION: Sequence=AAB17374.1; Type=Erroneous initiation;
WEB RESOURCE: Name=Wikipedia; Note=CXCL11 entry; URL="http://en.wikipedia.org/wiki/CXCL11";

-  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: CXCL11
Diseases sorted by gene-association score: nasal cavity cancer (22), nasal cavity adenocarcinoma (16), endotheliitis (13), opsoclonus-myoclonus syndrome (10), apple allergy (8), tick-borne encephalitis (8), nasal cavity squamous cell carcinoma (7), cryoglobulinemia (6), ethmoid sinus cancer (6), ethmoid sinus adenocarcinoma (6), bare lymphocyte syndrome, type i (5), mycosis fungoides (3), multiple sclerosis, disease progression, modifier of (2)

-  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: 1.10 RPKM in Pancreas
Total median expression: 6.09 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 -16.2083-0.195 Picture PostScript Text
3' UTR -224.101111-0.202 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
1RJT - NMR


ModBase Predicted Comparative 3D Structure on O14625
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity
GO:0005515 protein binding
GO:0008009 chemokine activity
GO:0008201 heparin binding
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: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:0051281 positive regulation of release of sequestered calcium ion into cytosol
GO:0070098 chemokine-mediated signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005623 cell


-  Descriptions from all associated GenBank mRNAs
  U66096 - Homo sapiens cell-line THP-1 small cytokine B subfamily member 11 SCYB11 precursor, mRNA, complete cds.
BC110986 - Homo sapiens chemokine (C-X-C motif) ligand 11, mRNA (cDNA clone MGC:102770 IMAGE:5178174), complete cds.
BC005292 - Homo sapiens chemokine (C-X-C motif) ligand 11, mRNA (cDNA clone MGC:12356 IMAGE:3934139), complete cds.
AF030514 - Homo sapiens interferon stimulated T-cell alpha chemoattractant precursor, mRNA, complete cds.
BC012532 - Homo sapiens chemokine (C-X-C motif) ligand 11, mRNA (cDNA clone MGC:13317 IMAGE:4096572), complete cds.
JD145764 - Sequence 126788 from Patent EP1572962.
JD357106 - Sequence 338130 from Patent EP1572962.
JD562436 - Sequence 543460 from Patent EP1572962.
JD268747 - Sequence 249771 from Patent EP1572962.
AF002985 - Homo sapiens putative alpha chemokine (H174) mRNA, complete cds.
LP880248 - Sequence 52 from Patent WO2017181111.
LP882077 - Sequence 19 from Patent WO2017181079.
LQ882912 - Sequence 61 from Patent WO2018160841.
JD166178 - Sequence 147202 from Patent EP1572962.
JD428931 - Sequence 409955 from Patent EP1572962.
JD284272 - Sequence 265296 from Patent EP1572962.
JD171784 - Sequence 152808 from Patent EP1572962.
JD244161 - Sequence 225185 from Patent EP1572962.
JD553329 - Sequence 534353 from Patent EP1572962.
JD499512 - Sequence 480536 from Patent EP1572962.
JD348006 - Sequence 329030 from Patent EP1572962.
U59286 - Human beta-R1 mRNA, partial cds.
JD483528 - Sequence 464552 from Patent EP1572962.
Y15220 - Homo sapiens mRNA for chemokine IP-9.
BT006787 - Homo sapiens chemokine (C-X-C motif) ligand 11 mRNA, complete cds.
EU176355 - Synthetic construct Homo sapiens clone IMAGE:100006463; FLH186804.01X; RZPDo839F10251D chemokine (C-X-C motif) ligand 11 (CXCL11) gene, encodes complete protein.
KJ892113 - Synthetic construct Homo sapiens clone ccsbBroadEn_01507 CXCL11 gene, encodes complete protein.
DQ895703 - Synthetic construct Homo sapiens clone IMAGE:100010163; FLH186797.01L; RZPDo839A0862D chemokine (C-X-C motif) ligand 11 (CXCL11) gene, encodes complete protein.
KJ905914 - Synthetic construct Homo sapiens clone ccsbBroadEn_15584 CXCL11 gene, encodes complete protein.
AB590165 - Synthetic construct DNA, clone: pFN21AE1534, Homo sapiens CXCL11 gene for chemokine (C-X-C motif) ligand 11, without stop codon, in Flexi system.
CU675091 - Synthetic construct Homo sapiens gateway clone IMAGE:100017523 5' read CXCL11 mRNA.
AF352781 - Homo sapiens IMAGE:1030351 I-TAC mRNA, partial cds.
JD370397 - Sequence 351421 from Patent EP1572962.
JD380468 - Sequence 361492 from Patent EP1572962.
JD334065 - Sequence 315089 from Patent EP1572962.
LQ927256 - Sequence 33 from Patent WO2018191660.
MP067531 - Sequence 35 from Patent WO2018232288.
MB143799 - JP 2019515670-A/10: METHODS FOR MONITORING AND TREATING CANCER.
MB423123 - JP 2019521641-A/10: METHODS FOR MONITORING AND TREATING CANCER.
MP584562 - Sequence 61 from Patent WO2020081767.

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

Protein O14625 (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: CXL11_HUMAN, ENST00000306621.1, ENST00000306621.2, ENST00000306621.3, ENST00000306621.4, ENST00000306621.5, ENST00000306621.6, ENST00000306621.7, ITAC, NM_005409, O14625, Q53YA3, Q92840, SCYB11, SCYB9B, uc317nwu.1, uc317nwu.2
UCSC ID: ENST00000306621.8_7
RefSeq Accession: NM_005409.5
Protein: O14625 (aka CXL11_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.