Ccl6 (C-C motif chemokine ligand 6) - Rat Genome Database

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Gene: Ccl6 (C-C motif chemokine ligand 6) Rattus norvegicus
Analyze
Symbol: Ccl6
Name: C-C motif chemokine ligand 6
RGD ID: 1303200
Description: Enables chemokine activity. Involved in cell chemotaxis. Predicted to be active in extracellular space. Orthologous to several human genes including CCL15 (C-C motif chemokine ligand 15) and CCL23 (C-C motif chemokine ligand 23); PARTICIPATES IN chemokine mediated signaling pathway; INTERACTS WITH diethyl phthalate; benzo[a]pyrene (ortholog); valproic acid (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C-C motif chemokine 6; chemokine (C-C motif) ligand 6; chemokine ligand 6; Mrp-1; Scay6; small-inducible cytokine A6
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Candidate Gene For: Bp300
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81068,877,692 - 68,883,366 (-)NCBIGRCr8
mRatBN7.21068,380,185 - 68,385,859 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1068,380,188 - 68,384,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1073,001,178 - 73,005,810 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01072,506,563 - 72,511,195 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01067,970,611 - 67,975,243 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01070,798,118 - 70,802,750 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1070,797,124 - 70,802,782 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01070,431,594 - 70,436,226 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41071,660,623 - 71,665,255 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11071,674,001 - 71,679,657 (-)NCBI
Celera1067,322,345 - 67,326,977 (-)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ccl6Ratbenzo[a]pyrene increases methylationISORGD:69044316480464Benzo(a)pyrene results in increased methylation of CCL15-CCL14 promoterCTDPMID:27901495
Ccl6Ratdiethyl phthalate decreases expressionEXP 6480464diethyl phthalate results in decreased expression of CCL15-CCL14 mRNACTDPMID:32341500
Ccl6Ratvalproic acid decreases methylationISORGD:69044316480464Valproic Acid results in decreased methylation of CCL15-CCL14 geneCTDPMID:29154799


Biological Process
1 to 11 of 11 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ccl6Ratantimicrobial humoral immune response mediated by antimicrobial peptide involved_inIBAPANTHER:PTN000245709|UniProtKB:O00585|UniProtKB:O00626|UniProtKB:O15444|UniProtKB:P22362|UniProtKB:P47992|UniProtKB:P51671|UniProtKB:P55774|UniProtKB:P80075|UniProtKB:Q99616|UniProtKB:Q997311600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratcell chemotaxis  IDA 2303127 RGD 
Ccl6Ratcell chemotaxis involved_inIBAMGI:104593|MGI:108224|MGI:1097153|MGI:1346316|MGI:1349183|MGI:98260|PANTHER:PTN000245709|RGD:1303200|RGD:3644|RGD:3645|RGD:3647|RGD:620441|RGD:69069|UniProtKB:O00175|UniProtKB:O00585|UniProtKB:O15444|UniProtKB:P10147|UniProtKB:P13500|UniProtKB:P13501|UniProtKB:P47992|UniProtKB:P51671|UniProtKB:P78423|UniProtKB:P80098|UniProtKB:Q99616|UniProtKB:Q99731|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratcell chemotaxis involved_inIEAGO:00080091600115GO_REF:0000108GOCGO_REF:0000108
Ccl6Ratchemokine-mediated signaling pathway involved_inIBAMGI:1349183|PANTHER:PTN000245709|RGD:3645|RGD:620458|UniProtKB:P13501|UniProtKB:P78423|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratchemotaxis involved_inIEAUniProtKB-KW:KW-01451600115GO_REF:0000043UniProtGO_REF:0000043
Ccl6Ratimmune response involved_inIEAInterPro:IPR000827|InterPro:IPR001811|InterPro:IPR0360481600115GO_REF:0000002InterProGO_REF:0000002
Ccl6Ratinflammatory response involved_inIBAMGI:108224|MGI:98262|PANTHER:PTN000245709|RGD:3644|RGD:3645|RGD:620458|RGD:69069|UniProtKB:P10147|UniProtKB:P784231600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratosteoclast differentiation  HEP 151665775 RGD 
Ccl6Ratpositive regulation of cell migration involved_inIBAMGI:104593|MGI:1349183|MGI:1928953|MGI:98259|MGI:98262|PANTHER:PTN000245709|RGD:1309255|RGD:3645|RGD:620458|RGD:69069|UniProtKB:O00175|UniProtKB:O00585|UniProtKB:P10147|UniProtKB:P13236|UniProtKB:P13501|UniProtKB:P22362|UniProtKB:P47992|UniProtKB:P51671|UniProtKB:P78423|UniProtKB:P80098|UniProtKB:Q99731|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratsignal transduction involved_inIEAGO:00051251600115GO_REF:0000108GOCGO_REF:0000108
1 to 11 of 11 rows

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ccl6Ratextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043
Ccl6Ratextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Ccl6Ratextracellular region located_inIEAInterPro:IPR000827|InterPro:IPR001811|InterPro:IPR0360481600115GO_REF:0000002InterProGO_REF:0000002
Ccl6Ratextracellular space located_inIEAUniProtKB-KW:KW-02021600115GO_REF:0000043UniProtGO_REF:0000043
Ccl6Ratextracellular space is_active_inIBAMGI:101878|MGI:104593|MGI:1306779|MGI:98259|MGI:98260|MGI:98261|MGI:98262|MGI:99512|PANTHER:PTN000245709|RGD:3644|RGD:3645|RGD:69069|UniProtKB:P10147|UniProtKB:P22362|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ccl6RatCCR chemokine receptor binding enablesIBAMGI:108224|MGI:1346316|MGI:1349183|MGI:98259|MGI:98262|MGI:99512|PANTHER:PTN000245709|UniProtKB:O00175|UniProtKB:O15444|UniProtKB:P10147|UniProtKB:P13236|UniProtKB:P13501|UniProtKB:P51671|UniProtKB:P55773|UniProtKB:P80098|UniProtKB:Q99731|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratchemokine activity  IDA 2303127 RGD 
Ccl6Ratchemokine activity enablesIBAMGI:104593|MGI:1097153|MGI:1099448|MGI:1346316|MGI:1349183|MGI:98260|PANTHER:PTN000245709|RGD:1303200|RGD:3644|RGD:3645|RGD:3647|RGD:620441|RGD:620458|RGD:69069|UniProtKB:O00175|UniProtKB:O00585|UniProtKB:O15444|UniProtKB:P10147|UniProtKB:P13501|UniProtKB:P22362|UniProtKB:P47992|UniProtKB:P51671|UniProtKB:P55773|UniProtKB:P78423|UniProtKB:P80098|UniProtKB:Q99616|UniProtKB:Q99731|UniProtKB:Q9Y2581600115GO_REF:0000033GO_CentralGO_REF:0000033
Ccl6Ratchemokine activity enablesIEAInterPro:IPR000827|InterPro:IPR001811|InterPro:IPR036048|InterPro:IPR0398091600115GO_REF:0000002InterProGO_REF:0000002
Ccl6Ratcytokine activity enablesIEAUniProtKB-KW:KW-02021600115GO_REF:0000043UniProtGO_REF:0000043

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ccl6Ratchemokine mediated signaling pathway  IEA 6907045 KEGGrno:04062

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#
Reference Title
Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Functional expression of CCL6 by rat microglia: a possible role of CCL6 in cell-cell communication. Kanno M, etal., J Neuroimmunol. 2005 Oct;167(1-2):72-80.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
9. Chemokine and chemokine receptor expression during colony stimulating factor-1-induced osteoclast differentiation in the toothless osteopetrotic rat: a key role for CCL9 (MIP-1gamma) in osteoclastogenesis in vivo and in vitro. Yang M, etal., Blood. 2006 Mar 15;107(6):2262-70. doi: 10.1182/blood-2005-08-3365. Epub 2005 Nov 22.
10. The CCL6 chemokine is differentially regulated by c-Myc and L-Myc, and promotes tumorigenesis and metastasis. Yi F, etal., Cancer Res 2003 Jun 1;63(11):2923-32.
1 to 10 of 10 rows
PMID:10660125   PMID:15489334   PMID:17218081   PMID:23212328   PMID:31551151   PMID:32833905  



Ccl6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81068,877,692 - 68,883,366 (-)NCBIGRCr8
mRatBN7.21068,380,185 - 68,385,859 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1068,380,188 - 68,384,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1073,001,178 - 73,005,810 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01072,506,563 - 72,511,195 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01067,970,611 - 67,975,243 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01070,798,118 - 70,802,750 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1070,797,124 - 70,802,782 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01070,431,594 - 70,436,226 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41071,660,623 - 71,665,255 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11071,674,001 - 71,679,657 (-)NCBI
Celera1067,322,345 - 67,326,977 (-)NCBICelera
Cytogenetic Map10q26NCBI
CCL15-CCL14
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381735,983,656 - 36,002,038 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1735,983,656 - 36,001,621 (-)EnsemblGRCh38hg38GRCh38
GRCh371734,310,692 - 34,329,084 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361731,334,805 - 31,353,125 (-)NCBINCBI36Build 36hg18NCBI36
Celera1731,220,248 - 31,238,646 (-)NCBICelera
Cytogenetic Map17q12NCBI
HuRef1730,495,709 - 30,514,091 (-)NCBIHuRef
CHM1_11734,375,227 - 34,393,609 (-)NCBICHM1_1
T2T-CHM13v2.01736,931,560 - 36,949,941 (-)NCBIT2T-CHM13v2.0

.

.
Variants in Ccl6
33 total Variants

Predicted Target Of
Summary Value
Count of predictions:102
Count of miRNA genes:87
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000045867
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 80 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103571058068663659Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
152025227Bw195Body weight QTL 1955.73body mass (VT:0001259)104698969968663659Rat
631565Hcuc4Hepatic copper content QTL 44.15liver copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106694181373452992Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
152025224Bw193Body weight QTL 1936.47body mass (VT:0001259)105166340575085664Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat

1 to 10 of 80 rows
D10Got88  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,383,129 - 68,383,299 (+)MAPPERmRatBN7.2
Rnor_6.01070,800,069 - 70,800,238NCBIRnor6.0
Rnor_5.01070,433,545 - 70,433,714UniSTSRnor5.0
RGSC_v3.41071,662,573 - 71,662,742RGDRGSC3.4
RGSC_v3.41071,662,574 - 71,662,743UniSTSRGSC3.4
RGSC_v3.11071,676,943 - 71,677,112RGD
Celera1067,324,296 - 67,324,465UniSTS
RH 2.0 Map10706.5RGD
Cytogenetic Map10q26UniSTS
RH128621  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,380,223 - 68,380,409 (+)MAPPERmRatBN7.2
Rnor_6.01070,797,163 - 70,797,348NCBIRnor6.0
Rnor_5.01070,430,639 - 70,430,824UniSTSRnor5.0
RGSC_v3.41071,659,668 - 71,659,853UniSTSRGSC3.4
Celera1067,321,390 - 67,321,575UniSTS
Cytogenetic Map10q26UniSTS
RH128710  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,380,770 - 68,380,984 (+)MAPPERmRatBN7.2
Rnor_6.01070,797,710 - 70,797,923NCBIRnor6.0
Rnor_5.01070,431,186 - 70,431,399UniSTSRnor5.0
RGSC_v3.41071,660,215 - 71,660,428UniSTSRGSC3.4
Celera1067,321,937 - 67,322,150UniSTS
Cytogenetic Map10q26UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 47 113 91 90 59 25 59 6 216 95 93 45 60 31



Ensembl Acc Id: ENSRNOT00000045867   ⟹   ENSRNOP00000048296
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1068,380,188 - 68,384,001 (-)Ensembl
Rnor_6.0 Ensembl1070,797,124 - 70,802,782 (-)Ensembl
RefSeq Acc Id: NM_001004202   ⟹   NP_001004202
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81068,877,692 - 68,883,366 (-)NCBI
mRatBN7.21068,380,185 - 68,385,859 (-)NCBI
Rnor_6.01070,798,118 - 70,802,750 (-)NCBI
Rnor_5.01070,431,594 - 70,436,226 (-)NCBI
RGSC_v3.41071,660,623 - 71,665,255 (-)RGD
Celera1067,322,345 - 67,326,977 (-)RGD
Sequence:
Protein RefSeqs NP_001004202 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79460 (Get FASTA)   NCBI Sequence Viewer  
  AAT39514 (Get FASTA)   NCBI Sequence Viewer  
  ABL63431 (Get FASTA)   NCBI Sequence Viewer  
  ABL63432 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000105793
GenBank Protein Q68FP3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001004202   ⟸   NM_001004202
- Peptide Label: precursor
- UniProtKB: A1EC85 (UniProtKB/Swiss-Prot),   Q6IVB4 (UniProtKB/Swiss-Prot),   Q68FP3 (UniProtKB/Swiss-Prot),   A6HHI5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000048296   ⟸   ENSRNOT00000045867
Chemokine interleukin-8-like

Name Modeler Protein Id AA Range Protein Structure
AF-Q68FP3-F1-model_v2 AlphaFold Q68FP3 1-115 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13697535
Promoter ID:EPDNEW_R8060
Type:single initiation site
Name:Ccl6_1
Description:chemokine (C-C motif) ligand 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01070,802,798 - 70,802,858EPDNEW


1 to 27 of 27 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-23867 BioCyc
Ensembl Genes ENSRNOG00000030021 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000146149 ENTREZGENE
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7121977 IMAGE-MGC_LOAD
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot
  Chemokine_CC_CS UniProtKB/Swiss-Prot
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot
  Interleukin_8-like_sf UniProtKB/Swiss-Prot
KEGG Report rno:287910 UniProtKB/Swiss-Prot
MGC_CLONE MGC:95015 IMAGE-MGC_LOAD
NCBI Gene 287910 ENTREZGENE
PANTHER C-C MOTIF CHEMOKINE 6 UniProtKB/Swiss-Prot
  PTHR12015 UniProtKB/Swiss-Prot
Pfam IL8 UniProtKB/Swiss-Prot
PhenoGen Ccl6 PhenoGen
PROSITE SMALL_CYTOKINES_CC UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000030021 RatGTEx
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot
UniProt A0A8L2QNC9_RAT UniProtKB/TrEMBL
  A1EC85 ENTREZGENE
  A6HHI5 ENTREZGENE, UniProtKB/TrEMBL
  CCL6_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6IVB4 ENTREZGENE
UniProt Secondary A1EC85 UniProtKB/Swiss-Prot
  Q6IVB4 UniProtKB/Swiss-Prot
1 to 27 of 27 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-12-10 Ccl6  C-C motif chemokine ligand 6  Ccl6  chemokine (C-C motif) ligand 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Ccl6  chemokine (C-C motif) ligand 6      Symbol and Name status set to approved 1299863 APPROVED
2005-07-14 Ccl6  chemokine (C-C motif) ligand 6      Symbol and Name status set to provisional 70820 PROVISIONAL