Basic Information

Symbol
CCL20
RNA class
mRNA
Alias
C-C Motif Chemokine Ligand 20 LARC MIP-3a SCYA20 ST38 CKb4 Small Inducible Cytokine Subfamily A (Cys-Cys), Member 20 Liver And Activation-Regulated Chemokine Macrophage Inflammatory Protein 3 Alpha Chemokine (C-C Motif) Ligand 20 Small-Inducible Cytokine A20 C-C Motif Chemokine 20 CC Chemokine LARC MIP-3-Alpha Exodus-1 MIP3A Beta Chemokine Exodus-1 Beta-Chemokine Exodus-1 Exodus
Location (GRCh38)
2:227805739-227817564
UCSC Genome Browser Search in Marker Scope
Forensic tag(s)
Other applications
External database
HGNC NCBI Ensembl OMIM UniProt GTEx

MANE select

Transcript ID
NM_004591.3
Sequence length
834.0 nt
GC content
0.3561

Secondary Structure

Generated by RNAfold
Minimum free energy (MFE) structure:
Secondary structure that contributes a minimum of free energy.
Ensemble properties:
Thermodynamic properties of the Boltzmann ensemble.
Minimum free energy
-185.20 kcal/mol
Thermodynamic ensemble
Free energy: -205.56 kcal/mol
Frequency: 0.0000
Diversity: 222.44
MFE Structure Visualization
Structure Prediction
MFE Structure Prediction
........(((((((...((((((((.((((.((((....))))...)))))))))))).............)))))))(((((((..(((((....(((((((((((.((...(((((............)))))))))))).)))))).))))).(((((((((((....((((.((((....((((..(((((((...........(((((..((((((((((((.....((((.(((..((....))..))).)))).((((.......)))).))))).))))))).))....)))..........)))))))..)))))))).))))...)))).....))))))).(((.((....)))))(((((...((((((((.((((((..((((......(((((..((((((.((((.((((((((((((.....(((((...((((.(((.....)))..))))...)))))......)))))..))))))).(((((.....)))))........(((((((((((((..............))))).))))))))...............))))...))))))))))).....)))))))))).)))...))))).))))).))))))).((((((((..(((((......(((((((((...(((((((.((((((((.........(((.....))).....(((((........))))).........)))))))).))))))))))))))))..))))).))))))))................((((((.......))))))....................
Thermodynamic Ensemble Prediction
....,,,.(((((((.,,((((((((.(({{.((((....))))...}))})))))))).}...........||}|||}{(((((((,{((((....(((((((((((.,,..,(((((............)))))),)))))))))))).)))))}|{(((((((((....((((.(((({...((((..(((({((,{{.(({.,,.(((({..((((((((((((,{{{..,,,.|||},((....,,..},,.}))},{{{|.....,,}}...))))),))))))).}}...,))).,,.})).}}))))))),,))}))))).))))...)))).....}))))},..,,.,,....}},||(((((...((((({{(.(((((,.{((((..{{,.(((((,.,{((((.(({{.{(((({({({{{,{,,,((({{...((((,(((,,,,,|}}..}}}}...})))}..,,,)))))},.))))}}}.(((((.....))))}...,,,,.{{{{{{((((({{...,,,,,..,,,.}|||||.}}}}}}},,,,,}}}}......}))).,.))))))))))).}},.)))))})}}}.)))...))))).)))))})}})))).||{||{{(,,((((,...,,,|||{{{((({,.{((((((.((((((((.........(((.....)))..,,,{,,,,,}},....,,,,..........)))))))).))))))))))))}}}},,))))}.})))))}}..............,,||,,,......,,}}}},.....................

Transcripts

ID Sequence Length GC content
NM_001130046.2 NCBI
AGAAUAUAACAGCACUCCCAAAGAACUGGGUACUCAACACUGAGCAGAU… 831 nt 0.3550
NM_004591.3 NCBI
AGAAUAUAACAGCACUCCCAAAGAACUGGGUACUCAACACUGAGCAGAU… 834 nt 0.3561
Summary

This antimicrobial gene belongs to the subfamily of small cytokine CC genes. Cytokines are a family of secreted proteins involved in immunoregulatory and inflammatory processes. The CC cytokines are proteins characterized by two adjacent cysteines. The protein encoded by this gene displays chemotactic activity for lymphocytes and can repress proliferation of myeloid progenitors. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2014]

Forensic Context

A study in mice demonstrated that the CCL20 gene expression was up-regulated at 24-48 hours post-gingival wounding, suggesting a role in promoting the entry of beneficial mononuclear cells during tissue repair [McGrory et al. DOI:10.1016/j.bbrc.2004.09.056]. Furthermore, genome-wide transcriptional profiling in human and rat skin showed the CCL20 was significantly up-regulated at the peak of UVB-induced inflammatory hyperalgesia, with a fold change of 57.0 in human and 44.3 in rat skin, highlighting its potential as a pain mediator [Dawes et al. DOI:10.1371/journal.pone.0093338].