Ccl4 (C-C motif chemokine ligand 4) - Rat Genome Database

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Gene: Ccl4 (C-C motif chemokine ligand 4) Rattus norvegicus
Analyze
Symbol: Ccl4
Name: C-C motif chemokine ligand 4
RGD ID: 620441
Description: Enables chemokine activity. Involved in several processes, including leukocyte chemotaxis; positive regulation of tumor necrosis factor production; and positive regulation of vascular permeability. Predicted to be active in extracellular space. Biomarker of anti-basement membrane glomerulonephritis; obesity; and status epilepticus. Human ortholog(s) of this gene implicated in acquired immunodeficiency syndrome and human immunodeficiency virus infectious disease. Orthologous to several human genes including CCL4 (C-C motif chemokine ligand 4); PARTICIPATES IN interleukin-12 signaling pathway; chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-C motif chemokine 4; chemokine (C-C motif) ligand 4; macrophage inflammatory protein 1-beta; macrophage inflammatory protein-1 beta; MIP-1-beta; Mip1-b; Scya4; small inducible cytokine A4; small-inducible cytokine A4
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21068,466,469 - 68,467,941 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1068,452,052 - 68,468,231 (+)Ensembl
Rnor_6.01070,870,926 - 70,886,357 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1070,884,531 - 70,886,355 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01070,502,606 - 70,518,350 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41071,759,643 - 71,761,115 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11071,774,012 - 71,775,485 (+)NCBI
Celera1067,405,932 - 67,407,404 (+)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-anisomycin  (ISO)
(-)-demecolcine  (ISO)
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
(4-oxo-3-\{[5-(trifluoromethyl)-1,3-benzothiazol-2-yl]methyl\}-3,4-dihydrophthalazin-1-yl)acetic acid  (ISO)
(R)-mevalonic acid  (ISO)
1,3-benzothiazole-2-thiol  (ISO)
1,4-benzoquinone  (ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-fluoro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (ISO)
15-acetyldeoxynivalenol  (ISO)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-D  (ISO)
2,6-dichloroindophenol  (ISO)
2-hydroxypropanoic acid  (ISO)
26-hydroxycholesterol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-phenylprop-2-enal  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
7-ketocholesterol  (ISO)
7alpha-hydroxycholesterol  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
alclometasone dipropionate  (ISO)
alexidine  (ISO)
all-trans-retinoic acid  (ISO)
alpha-hexylcinnamaldehyde  (ISO)
aluminium hydroxide  (ISO)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
arachidonyl-2'-chloroethylamide  (ISO)
aripiprazole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asperentin  (ISO)
Bandrowski's base  (ISO)
Bardoxolone methyl  (ISO)
barium sulfate  (EXP)
beclomethasone  (ISO)
benzalkonium chloride  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzethonium chloride  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzocaine  (ISO)
beryllium sulfate  (ISO)
betamethasone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
budesonide  (ISO)
C.I. Natural Red 20  (ISO)
Calcimycin  (ISO)
camptothecin  (ISO)
carbon nanotube  (EXP,ISO)
catechol  (ISO)
cefaloridine  (EXP)
cephaeline  (ISO)
ceric oxide  (EXP)
chloromethylisothiazolinone  (ISO)
chlorothalonil  (ISO)
chlorpyrifos  (ISO)
cholesterol  (ISO)
choline  (ISO)
chrysene  (ISO)
cis-caffeic acid  (ISO)
cisplatin  (EXP,ISO)
clopidogrel  (ISO)
cobalt atom  (EXP)
cobalt(2+) sulfate  (ISO)
cortisol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
D-penicillamine  (EXP,ISO)
daunorubicin  (ISO)
Decursin  (ISO)
deoxynivalenol  (ISO)
dequalinium  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dichromium trioxide  (ISO)
digitoxigenin  (ISO)
digoxigenin  (ISO)
digoxin  (ISO)
dihydroxyacetone  (ISO)
dimethyl-(phenylmethyl)-[2-[2-[4-(2,4,4-trimethylpentan-2-yl)phenoxy]ethoxy]ethyl]ammonium  (ISO)
dioxygen  (ISO)
doxorubicin  (EXP)
emetine  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
eugenol  (ISO)
farnesol  (ISO)
ferric oxide  (ISO)
fludrocortisone  (ISO)
flumequine  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
furan  (EXP,ISO)
gadodiamide hydrate  (EXP)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glutaraldehyde  (ISO)
graphene oxide  (ISO)
graphite  (EXP)
hydralazine  (ISO)
hydrogen chloride  (EXP)
hydroquinone  (ISO)
indirubin-3'-monoxime  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
ionomycin  (ISO)
L-methionine  (ISO)
lanatoside C  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lidocaine  (EXP)
linuron  (ISO)
lipopolysaccharide  (ISO)
meclocycline  (ISO)
MeIQx  (ISO)
metam  (ISO)
methamphetamine  (EXP)
methionine sulfoximine  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
Methylbenzethonium chloride  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
minocycline  (ISO)
Muraglitazar  (EXP)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
N-methyl-N-nitrosourea  (EXP)
neocuproine  (ISO)
neoechinulin A  (ISO)
nickel atom  (EXP,ISO)
nickel sulfate  (ISO)
oxaliplatin  (EXP)
oxytetracycline  (ISO)
ozone  (ISO)
palmatine  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phthalic anhydride  (ISO)
poly(I:C)  (ISO)
potassium dichromate  (ISO)
prednisolone  (ISO)
propidium  (ISO)
Proscillaridin  (ISO)
prostaglandin E2  (ISO)
puromycin  (ISO)
pyrrolidine dithiocarbamate  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
ritonavir  (ISO)
roflumilast  (ISO)
SB 203580  (ISO)
serpentine asbestos  (ISO)
Shikonin  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (EXP)
Soman  (EXP)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
taurocholic acid  (ISO)
Tesaglitazar  (EXP)
testosterone  (EXP)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
thiostrepton  (ISO)
tigecycline  (ISO)
titanium dioxide  (EXP,ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trans-caffeic acid  (ISO)
tremolite asbestos  (ISO)
Tributyltin oxide  (ISO)
trimellitic anhydride  (ISO)
trimethyltin  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (EXP)
tunicamycin  (ISO)
usnic acid  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
Y-27632  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
extracellular space  (IBA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Role of host immune response and viral load in the differential outcome of pandemic H1N1 (2009) influenza virus infection in Indian patients. Arankalle VA, etal., PLoS One. 2010 Oct 1;5(10). pii: e13099.
2. [Levels of CC-chemokine (MCP-1 alpha, MIP-1 beta) in induced sputum of patients with chronic obstructive pulmonary disease and patients with chronic bronchitis]. Barczyk A, etal., Pneumonol Alergol Pol. 2001;69(1-2):40-9.
3. SIMULTANEOUS EVALUATION OF THE CIRCULATING LEVELS OF BOTH Th1 AND Th2 CHEMOKINES IN PATIENTS WITH AUTOIMMUNE ADDISON'S DISEASE. Bellastella G, etal., J Endocrinol Invest. 2010 Dec 15.
4. Role of CC chemokines (macrophage inflammatory protein-1 beta, monocyte chemoattractant protein-1, RANTES) in acute lung injury in rats. Bless NM, etal., J Immunol 2000 Mar 1;164(5):2650-9.
5. Alveolar macrophages and CC chemokines are increased in children with cystic fibrosis. Brennan S, etal., Eur Respir J. 2009 Sep;34(3):655-61. Epub 2009 Apr 22.
6. An investigation of the inflammatory cytokine and chemokine network in systemic sclerosis. Codullo V, etal., Ann Rheum Dis. 2011 Jun;70(6):1115-21. Epub 2011 Feb 1.
7. CC and CXC chemokines in breastmilk are associated with mother-to-child HIV-1 transmission. Farquhar C, etal., Curr HIV Res. 2005 Oct;3(4):361-9.
8. Inflammation Profiling of Critically Ill Coronavirus Disease 2019 Patients. Fraser DD, etal., Crit Care Explor. 2020 Jun 22;2(6):e0144. doi: 10.1097/CCE.0000000000000144. eCollection 2020 Jun.
9. Adenosine A2A receptor activation and macrophage-mediated experimental glomerulonephritis. Garcia GE, etal., FASEB J. 2008 Feb;22(2):445-54. Epub 2007 Sep 26.
10. 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.
11. Corticosteroid-resistant asthma is associated with classical antimicrobial activation of airway macrophages. Goleva E, etal., J Allergy Clin Immunol. 2008 Sep;122(3):550-9.e3.
12. Status epilepticus evokes prolonged increase in the expression of CCL3 and CCL4 mRNA and protein in the rat brain. Guzik-Kornacka A, etal., Acta Neurobiol Exp (Wars). 2011;71(2):193-207.
13. Biofilms correlate with TH1 inflammation in the sinonasal tissue of patients with chronic rhinosinusitis. Hekiert AM, etal., Otolaryngol Head Neck Surg. 2009 Oct;141(4):448-53.
14. Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Huang C, etal., Lancet. 2020 Feb 15;395(10223):497-506. doi: 10.1016/S0140-6736(20)30183-5. Epub 2020 Jan 24.
15. Blockade of Th1 chemokine receptors ameliorates pulmonary granulomatosis in mice. Kishi J, etal., Eur Respir J. 2011 Aug;38(2):415-24. Epub 2011 Jan 27.
16. Inverse association of plasma IL-13 and inflammatory chemokines with lung function impairment in stable COPD: a cross-sectional cohort study. Lee JS, etal., Respir Res. 2007 Sep 14;8:64.
17. Early up-regulation of chemokine expression in fulminant hepatic failure. Leifeld L, etal., J Pathol. 2003 Mar;199(3):335-44. doi: 10.1002/path.1298.
18. Clinical importance of bronchoalveolar lavage fluid and blood cytokines, surfactant protein D, and Kerbs von Lungren 6 antigen in idiopathic pulmonary alveolar proteinosis. Lin FC, etal., Mayo Clin Proc. 2008 Dec;83(12):1344-9.
19. Multiplex bead analysis of urinary cytokines of type 2 diabetic patients with normo- and microalbuminuria. Liu J, etal., J Immunoassay Immunochem. 2010 Oct;31(4):279-89.
20. Dietary plasma proteins attenuate the innate immunity response in a mouse model of acute lung injury. Maijo M, etal., Br J Nutr. 2011 Sep 12:1-9.
21. Crucial role of CCL3/MIP-1alpha in the recurrence of autoimmune anterior uveitis induced with myelin basic protein in Lewis rats. Manczak M, etal., J Autoimmun. 2002 Jun;18(4):259-70.
22. Multiplex cytokine profiling in patients with sepsis. Mera S, etal., APMIS. 2011 Feb;119(2):155-63. doi: 10.1111/j.1600-0463.2010.02705.x. Epub 2010 Dec 10.
23. Decreased cytokine and chemokine mRNA expression in bronchoalveolar lavage in asymptomatic smoking subjects. Meuronen A, etal., Respiration. 2008;75(4):450-8. Epub 2008 Jan 30.
24. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
25. In vivo effect of surfactant on inflammatory cytokines during endotoxin-induced lung injury in rodents. Mittal N and Sanyal SN, J Immunotoxicol. 2011 Oct-Dec;8(4):274-83. Epub 2011 Jul 18.
26. Genetic variation in the CCL18-CCL3-CCL4 chemokine gene cluster influences HIV Type 1 transmission and AIDS disease progression. Modi WS, etal., Am J Hum Genet. 2006 Jul;79(1):120-8. Epub 2006 May 30.
27. CCL4/MIP-1beta levels in tear fluid and serum of patients with cystic fibrosis. Mrugacz M J Interferon Cytokine Res. 2010 Jul;30(7):509-12.
28. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
29. Differential regulation of beta-chemokines in children with Plasmodium falciparum malaria. Ochiel DO, etal., Infect Immun. 2005 Jul;73(7):4190-7.
30. Temporal mRNA profiles of inflammatory mediators in the murine 1-methyl-4-phenyl-1,2,3,6-tetrahydropyrimidine model of Parkinson's disease. Pattarini R, etal., Neuroscience. 2007 Mar 16;145(2):654-68. Epub 2007 Jan 29.
31. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
32. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
33. GOA pipeline RGD automated data pipeline
34. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
36. Increased inflammation and impaired resistance to Chlamydophila pneumoniae infection in Dusp1(-/-) mice: critical role of IL-6. Rodriguez N, etal., J Leukoc Biol. 2010 Sep;88(3):579-87. Epub 2010 May 18.
37. Clinical, microbiologic, and immunologic determinants of mortality in hospitalized patients with HIV-associated tuberculosis: A prospective cohort study. Schutz C, etal., PLoS Med. 2019 Jul 5;16(7):e1002840. doi: 10.1371/journal.pmed.1002840. eCollection 2019 Jul.
38. Maternal obesity promotes a proinflammatory signature in rat uterus and blastocyst. Shankar K, etal., Endocrinology. 2011 Nov;152(11):4158-70. Epub 2011 Aug 23.
39. High levels of inflammatory chemokines and cytokines in joint fluid and synovial tissue throughout the course of antibiotic-refractory lyme arthritis. Shin JJ, etal., Arthritis Rheum. 2007 Apr;56(4):1325-35.
40. Serum chemokine profiles in visceral leishmaniasis, HIV and HIV/ visceral leishmaniasis co-infected Ethiopian patients. Sisay Z, etal., Ethiop Med J. 2011 Jul;49(3):179-86.
41. Cytokine and chemokine transcription profile during Mycoplasma pulmonis infection in susceptible and resistant strains of mice: macrophage inflammatory protein 1beta (CCL4) and monocyte chemoattractant protein 2 (CCL8) and accumulation of CCR5+ Th cells. Sun X, etal., Infect Immun. 2006 Oct;74(10):5943-54.
42. Circulating cytokines in Norwegian patients with psoriatic arthritis determined by a multiplex cytokine array system. Szodoray P, etal., Rheumatology (Oxford). 2007 Mar;46(3):417-25. Epub 2006 Aug 27.
43. Epidemic of hepatitis B with high mortality in India: association of fulminant disease with lack of CCL4 and natural killer T cells. Tripathy AS, etal., J Viral Hepat. 2011 Oct;18(10):e415-22. doi: 10.1111/j.1365-2893.2011.01457.x. Epub 2011 May 18.
44. Association of serum MIP-1alpha, MIP-1beta, and RANTES with clinical manifestations, disease activity, and damage accrual in systemic lupus erythematosus. Vila LM, etal., Clin Rheumatol. 2007 May;26(5):718-22. Epub 2006 Aug 19.
45. Plasma IP-10 and MCP-3 levels are highly associated with disease severity and predict the progression of COVID-19. Yang Y, etal., J Allergy Clin Immunol. 2020 Apr 29. pii: S0091-6749(20)30576-5. doi: 10.1016/j.jaci.2020.04.027.
46. White matter damage and chemokine induction in developing rat brain after intrauterine infection. Yuan TM, etal., J Perinat Med. 2005;33(5):415-22.
Additional References at PubMed
PMID:7545673   PMID:8699119   PMID:10383387   PMID:10679098   PMID:10841574   PMID:12196270   PMID:17218081   PMID:20959807   PMID:22353418   PMID:22366434   PMID:22960654   PMID:24486487  


Genomics

Candidate Gene Status
Ccl4 is a candidate Gene for QTL Bp300
Ccl4 is a candidate Gene for QTL Eau9
Comparative Map Data
Ccl4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21068,466,469 - 68,467,941 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1068,452,052 - 68,468,231 (+)Ensembl
Rnor_6.01070,870,926 - 70,886,357 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1070,884,531 - 70,886,355 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01070,502,606 - 70,518,350 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41071,759,643 - 71,761,115 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11071,774,012 - 71,775,485 (+)NCBI
Celera1067,405,932 - 67,407,404 (+)NCBICelera
Cytogenetic Map10q26NCBI
CCL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381736,103,827 - 36,105,614 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1736,103,827 - 36,105,621 (+)EnsemblGRCh38hg38GRCh38
GRCh371734,431,220 - 34,433,007 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361731,455,333 - 31,457,127 (+)NCBINCBI36hg18NCBI36
Build 341731,455,332 - 31,457,127NCBI
Celera1731,340,772 - 31,342,566 (+)NCBI
Cytogenetic Map17q12NCBI
HuRef1730,615,959 - 30,617,753 (+)NCBIHuRef
CHM1_11734,495,398 - 34,497,192 (+)NCBICHM1_1
T2T-CHM13v2.01737,051,742 - 37,053,529 (+)NCBI
Ccl4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391183,553,410 - 83,555,509 (+)NCBIGRCm39mm39
GRCm39 Ensembl1183,553,410 - 83,555,509 (+)Ensembl
GRCm381183,648,624 - 83,664,683 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1183,662,584 - 83,664,683 (+)EnsemblGRCm38mm10GRCm38
MGSCv371183,476,086 - 83,478,185 (+)NCBIGRCm37mm9NCBIm37
MGSCv361183,478,782 - 83,480,875 (+)NCBImm8
Celera1193,266,966 - 93,269,065 (+)NCBICelera
Cytogenetic Map11CNCBI
cM Map1151.09NCBI
CCL4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1937,681,342 - 37,682,691 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl937,676,966 - 37,710,209 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha936,905,070 - 36,906,419 (-)NCBI
ROS_Cfam_1.0938,491,608 - 38,492,957 (-)NCBI
ROS_Cfam_1.0 Ensembl938,487,223 - 38,520,522 (-)Ensembl
UMICH_Zoey_3.1937,273,230 - 37,274,579 (-)NCBI
UNSW_CanFamBas_1.0937,560,499 - 37,561,848 (-)NCBI
UU_Cfam_GSD_1.0937,647,662 - 37,649,011 (-)NCBI
CCL4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1239,478,882 - 39,481,082 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11239,479,190 - 39,480,511 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21241,048,660 - 41,049,981 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
RH133782  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21068,467,939 - 68,468,145 (+)MAPPERmRatBN7.2
Rnor_6.01070,886,066 - 70,886,271NCBIRnor6.0
Rnor_5.01070,518,059 - 70,518,264UniSTSRnor5.0
RGSC_v3.41071,761,114 - 71,761,319UniSTSRGSC3.4
Celera1067,407,403 - 67,407,608UniSTS
Cytogenetic Map10q26UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
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
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
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
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)104944455181709989Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)106134527681714865Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
61402Niddm3Non-insulin dependent diabetes mellitus QTL 34.58blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)106134541382564856Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
2298481Eau9Experimental allergic uveoretinitis QTL 90.0169uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)106592723382565079Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
631565Hcuc4Hepatic copper content QTL 44.15hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106694181373452992Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106750210873579767Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642290Bp299Blood pressure QTL 299arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106823013469282520Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:33
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000015199
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7 1 10 1 5
Low 2 15 29 22 9 22 6 18 22 6
Below cutoff 1 24 21 18 18 7 9 47 17 13 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015199   ⟹   ENSRNOP00000015199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1068,452,052 - 68,468,231 (+)Ensembl
Rnor_6.0 Ensembl1070,884,531 - 70,886,355 (+)Ensembl
RefSeq Acc Id: NM_053858   ⟹   NP_446310
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21068,466,469 - 68,467,941 (+)NCBI
Rnor_6.01070,884,595 - 70,886,067 (+)NCBI
Rnor_5.01070,502,606 - 70,518,350 (+)NCBI
RGSC_v3.41071,759,643 - 71,761,115 (+)RGD
Celera1067,405,932 - 67,407,404 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446310 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA96497 (Get FASTA)   NCBI Sequence Viewer  
  ABL63435 (Get FASTA)   NCBI Sequence Viewer  
  ABL63436 (Get FASTA)   NCBI Sequence Viewer  
  EDM05493 (Get FASTA)   NCBI Sequence Viewer  
  P50230 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446310   ⟸   NM_053858
- Peptide Label: precursor
- UniProtKB: A1EC89 (UniProtKB/Swiss-Prot),   P50230 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015199   ⟸   ENSRNOT00000015199
Protein Domains
SCY

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P50230-F1-model_v2 AlphaFold P50230 1-92 view protein structure

Transcriptome

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

Promoters
RGD ID:13697537
Promoter ID:EPDNEW_R8062
Type:single initiation site
Name:Ccl4_1
Description:C-C motif chemokine ligand 4
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_6.01070,884,520 - 70,884,580EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620441 AgrOrtholog
BioCyc Gene G2FUF-23863 BioCyc
Ensembl Genes ENSRNOG00000011406 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015199 ENTREZGENE
  ENSRNOP00000015199.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015199 ENTREZGENE
  ENSRNOT00000015199.4 UniProtKB/TrEMBL
InterPro Chemokine_b/g/d UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_CC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116637 UniProtKB/Swiss-Prot
NCBI Gene 116637 ENTREZGENE
PANTHER PTHR12015 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IL8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccl4 PhenoGen
PROSITE SMALL_CYTOKINES_CC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SCY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A1EC89 ENTREZGENE
  CCL4_RAT UniProtKB/Swiss-Prot
  G3V7I1_RAT UniProtKB/TrEMBL
  P50230 ENTREZGENE
UniProt Secondary A1EC89 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Ccl4  C-C motif chemokine ligand 4  Ccl4  chemokine (C-C motif) ligand 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ccl4  chemokine (C-C motif) ligand 4    small inducible cytokine A4  Name updated 1299863 APPROVED
2004-09-10 Ccl4  small inducible cytokine A4  Scya4    Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process exogenously added protein caused an increase in lung vascular leak 68880