Human Gene CCL11 (ENST00000305869.4_4) from GENCODE V47lift37
  Description: C-C motif chemokine ligand 11 (from RefSeq NM_002986.3)
Gencode Transcript: ENST00000305869.4_4
Gencode Gene: ENSG00000172156.4_7
Transcript (Including UTRs)
   Position: hg19 chr17:32,612,761-32,615,353 Size: 2,593 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr17:32,612,828-32,614,709 Size: 1,882 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:32,612,761-32,615,353)mRNA (may differ from genome)Protein (97 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid 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


-  MalaCards Disease Associations
  MalaCards Gene Search: CCL11
Diseases sorted by gene-association score: asthma* (447), hiv-1* (222), asthma susceptibility, ccl11-related* (100), eosinophilic gastroenteritis (33), giant papillary conjunctivitis (32), common cold (27), folliculitis (25), papillary conjunctivitis (24), chronic eosinophilic pneumonia (21), allergic rhinitis (21), pulmonary eosinophilia (20), hypereosinophilic syndrome (19), rhinitis (19), vernal keratoconjunctivitis (19), smooth muscle tumor (18), enteropathy-associated t-cell lymphoma (18), atopic dermatitis (18), allergic asthma (18), autoinflammation, lipodystrophy, and dermatosis syndrome (18), allergic conjunctivitis (17), angiostrongyliasis (16), gastrointestinal allergy (16), dermatitis (15), vulvovaginitis (15), esophagitis (14), eosinophilic meningitis (13), keratoconjunctivitis (13), eosinophilic pneumonia (13), bronchiolitis (12), conjunctivitis (12), strongyloidiasis (12), dermatitis herpetiformis (12), kimura disease (11), retroperitoneal fibrosis (10), gastrointestinal system disease (10), allergic hypersensitivity disease (10), chronic conjunctivitis (9), chronic meningitis (9), pediatric ulcerative colitis (9), eosinophilic gastritis (9), scabies (9), leukocyte disease (8), bronchitis (8), pemphigoid gestationis (8), gastroenteritis (8), blepharoconjunctivitis (8), pneumonia (8), bullous pemphigoid (7), blepharitis (7), bronchial disease (7), cryptosporidiosis (7), respiratory system disease (6), esophagitis, eosinophilic, 1 (6), otitis media (6), onchocerciasis (6), myelitis (6), upper respiratory tract disease (6), radiculopathy (6), nasal cavity disease (6), nose disease (6), conjunctival disease (6), japanese spotted fever (6), corneal ulcer (5), carrion's disease (4), eye disease (2), malaria (1)
* = Manually curated disease association

-  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: 20.18 RPKM in Colon - Sigmoid
Total median expression: 56.79 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 -12.1067-0.181 Picture PostScript Text
3' UTR -152.00644-0.236 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
IPR000827 - Chemokine_CC_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 Q6I9T4
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:0008009 chemokine activity

Biological Process:
GO:0002544 chronic inflammatory response
GO:0002551 mast cell chemotaxis
GO:0006935 chemotaxis
GO:0006955 immune response
GO:0007015 actin filament organization
GO:0010469 regulation of receptor activity
GO:0035962 response to interleukin-13
GO:0045766 positive regulation of angiogenesis
GO:0048245 eosinophil chemotaxis
GO:0060444 branching involved in mammary gland duct morphogenesis
GO:0060763 mammary duct terminal end bud growth
GO:0070371 ERK1 and ERK2 cascade
GO:0070670 response to interleukin-4

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  JD186259 - Sequence 167283 from Patent EP1572962.
BC017850 - Homo sapiens chemokine (C-C motif) ligand 11, mRNA (cDNA clone MGC:22554 IMAGE:4618679), complete cds.
Z69291 - H.sapiens mRNA for CC-chemokine.
Z75668 - H.sapiens mRNA for CC-chemokine, eotaxin variant (clone 53).
U46573 - Human eotaxin precursor mRNA, complete cds.
D49372 - Homo sapiens mRNA for eotaxin, complete cds.
Z75669 - H.sapiens mRNA for CC-chemokine, eotaxin variant (clone 34).
JD379498 - Sequence 360522 from Patent EP1572962.
DQ895158 - Synthetic construct Homo sapiens clone IMAGE:100009618; FLH181925.01L; RZPDo839A10137D chemokine (C-C motif) ligand 11 (CCL11) gene, encodes complete protein.
DQ891969 - Synthetic construct clone IMAGE:100004599; FLH181929.01X; RZPDo839A10138D chemokine (C-C motif) ligand 11 (CCL11) gene, encodes complete protein.
AB463482 - Synthetic construct DNA, clone: pF1KB6737, Homo sapiens CCL11 gene for chemokine (C-C motif) ligand 11, without stop codon, in Flexi system.
CR457421 - Homo sapiens full open reading frame cDNA clone RZPDo834F1210D for gene CCL11, chemokine (C-C motif) ligand 11; complete cds, incl. stopcodon.
FU768458 - Short interference ribonucleic acids for treating allergic diseases.
FU768459 - Short interference ribonucleic acids for treating allergic diseases.
JD293728 - Sequence 274752 from Patent EP1572962.
JD473364 - Sequence 454388 from Patent EP1572962.
FU768457 - Short interference ribonucleic acids for treating allergic diseases.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_eosinophilsPathway - The Role of Eosinophils in the Chemokine Network of Allergy
h_CCR3Pathway - CCR3 signaling in Eosinophils
h_il5Pathway - IL 5 Signaling Pathway

-  Other Names for This Gene
  Alternate Gene Symbols: CCL11 , ENST00000305869.1, ENST00000305869.2, ENST00000305869.3, hCG_29299 , NM_002986, Q6I9T4, Q6I9T4_HUMAN, uc317nsc.1, uc317nsc.2
UCSC ID: ENST00000305869.4_4
RefSeq Accession: NM_002986.3
Protein: Q6I9T4

-  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.