Human Gene CXCL17 (ENST00000601181.6) from GENCODE V44
  Description: Homo sapiens C-X-C motif chemokine ligand 17 (CXCL17), transcript variant 2, non-coding RNA. (from RefSeq NR_133910)
RefSeq Summary (NM_198477): The protein encoded by this gene is a mucosal chemokine that attracts immature dendritic cells and blood monocytes to the lungs. The encoded protein also promotes tumorigenesis through an angiogenic activity. Finally, this protein exhibits strong antimicrobial activity against E. coli, S. aureus, Salmonella, P. aeruginosa, and C. albicans. Two transcript variants, one protein-coding and the other non-protein coding, have been found for this gene. [provided by RefSeq, Dec 2015].
Gencode Transcript: ENST00000601181.6
Gencode Gene: ENSG00000189377.9
Transcript (Including UTRs)
   Position: hg38 chr19:42,428,278-42,442,946 Size: 14,669 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg38 chr19:42,428,884-42,442,832 Size: 13,949 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:42,428,278-42,442,946)mRNA (may differ from genome)Protein (119 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: VCC1_HUMAN
DESCRIPTION: RecName: Full=VEGF co-regulated chemokine 1; AltName: Full=C-X-C motif chemokine 17; AltName: Full=Dendritic cell and monocyte chemokine-like protein; Short=DMC; Flags: Precursor;
FUNCTION: Plays a role in angiogenesis and possibly in the development of tumors. May be a housekeeping chemokine regulating recruitment of nonactivated blood monocytes and immature dendritic cells into tissues. May play a role in the innate defense against infections.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Detected in trachea, stomach, lung and skeletal muscle. Detected in intestine and in normal and asthmatic lung (at protein level). Breast tumors showed 3- to 24-fold up- regulation.
DEVELOPMENTAL STAGE: Detected in fetal lung.
INDUCTION: Found to be up-regulated in duodenal mucosa during acute cholera.
SIMILARITY: Belongs to the intercrine alpha (chemokine CxC) family.
WEB RESOURCE: Name=Wikipedia; Note=CXCL17 entry; URL="http://en.wikipedia.org/wiki/CXCL17";

-  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: CXCL17
Diseases sorted by gene-association score: cholera (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 195.98 RPKM in Stomach
Total median expression: 523.96 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 -30.00114-0.263 Picture PostScript Text
3' UTR -113.18606-0.187 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
  ModBase Predicted Comparative 3D Structure on Q6UXB2
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0000187 activation of MAPK activity
GO:0001525 angiogenesis
GO:0006935 chemotaxis
GO:0007275 multicellular organism development
GO:0010575 positive regulation of vascular endothelial growth factor production
GO:0010759 positive regulation of macrophage chemotaxis
GO:0030154 cell differentiation
GO:0050728 negative regulation of inflammatory response
GO:0090026 positive regulation of monocyte chemotaxis

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


-  Descriptions from all associated GenBank mRNAs
  AY598464 - Homo sapiens VEGF co-regulated chemokine 1 precursor (VCC1) mRNA, complete cds.
JD131570 - Sequence 112594 from Patent EP1572962.
JD333664 - Sequence 314688 from Patent EP1572962.
JD096834 - Sequence 77858 from Patent EP1572962.
JD156763 - Sequence 137787 from Patent EP1572962.
AY358433 - Homo sapiens clone DNA56855 DMC (UNQ473) mRNA, complete cds.
JD232414 - Sequence 213438 from Patent EP1572962.
JD416155 - Sequence 397179 from Patent EP1572962.
JD357875 - Sequence 338899 from Patent EP1572962.
AK292985 - Homo sapiens cDNA FLJ76583 complete cds, highly similar to Homo sapiens DMC (UNQ473), mRNA.
JD367093 - Sequence 348117 from Patent EP1572962.
JD382176 - Sequence 363200 from Patent EP1572962.
JD318999 - Sequence 300023 from Patent EP1572962.
JD375617 - Sequence 356641 from Patent EP1572962.
JD358319 - Sequence 339343 from Patent EP1572962.
JD326090 - Sequence 307114 from Patent EP1572962.
BC093946 - Homo sapiens chemokine (C-X-C motif) ligand 17, mRNA (cDNA clone MGC:120981 IMAGE:7939791), complete cds.
BC112095 - Homo sapiens chemokine (C-X-C motif) ligand 17, mRNA (cDNA clone MGC:138300 IMAGE:8327563), complete cds.
JD261108 - Sequence 242132 from Patent EP1572962.
JD236719 - Sequence 217743 from Patent EP1572962.
JD108517 - Sequence 89541 from Patent EP1572962.
JD266713 - Sequence 247737 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8KAC0, ENST00000601181.1, ENST00000601181.2, ENST00000601181.3, ENST00000601181.4, ENST00000601181.5, NR_133910, Q6UXB2, uc002otu.1, uc002otu.2, uc002otu.3, uc002otu.4, uc002otu.5, UNQ473/PRO842, VCC1, VCC1_HUMAN
UCSC ID: ENST00000601181.6
RefSeq Accession: NM_198477
Protein: Q6UXB2 (aka VCC1_HUMAN)
CCDS: CCDS12608.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.