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Gene: Ccl28 (C-C motif chemokine ligand 28) Rattus norvegicus

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Symbol:

Ccl28

Name:

C-C motif chemokine ligand 28

RGD ID:

619937

Description:

Predicted to enable chemokine activity. Involved in response to nutrient. Predicted to be located in extracellular space and secretory granule. Biomarker of hypertension and lymphopenia. Orthologous to human CCL28 (C-C motif chemokine ligand 28); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 4,4'-diaminodiphenylmethane.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

C-C motif chemokine 28; CC chemokine CCL28; chemokine (C-C motif) ligand 28; Scya28

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CCL28 (C-C motif chemokine ligand 28)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, Panther
Mus musculus (house mouse):	Ccl28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccl28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCL28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCL28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccl28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCL28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCL28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccl28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Ccl28 (C-C motif chemokine ligand 28)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	DNAJC9 (DnaJ heat shock protein family (Hsp40) member C9)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	CCL28 (C-C motif chemokine ligand 28)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CCL28 (C-C motif chemokine ligand 28)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ccl28 (C-C motif chemokine ligand 28)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ccl28 (C-C motif chemokine ligand 28)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ccl27a (chemokine (C-C motif) ligand 27a)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Danio rerio (zebrafish):	ccl27b (chemokine (C-C motif) ligand 27b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Danio rerio (zebrafish):	ccl27b (chemokine (C-C motif) ligand 27b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccl27	Alliance	DIOPT (Hieranoid\|OrthoInspector\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccl28	Alliance	DIOPT (InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	ccl28	Alliance	DIOPT (InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	53,334,071 - 53,358,709 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	53,334,071 - 53,358,709 (+)	Ensembl				GRCr8
mRatBN7.2	2	51,601,354 - 51,625,999 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	51,601,331 - 51,625,997 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	2	58,720,298 - 58,745,016 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	56,779,014 - 56,803,736 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	51,713,145 - 51,737,860 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	52,379,341 - 52,403,979 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	52,379,341 - 52,404,246 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	2	70,743,251 - 70,767,888 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	51,688,294 - 51,712,931 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	47,256,317 - 47,280,946 (+)	NCBI		Celera
RGSC_v3.1	2	51,616,526 - 51,641,162 (+)	NCBI
Cytogenetic Map	2	q15	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

asthma (ISO)

atopic dermatitis (ISO)

bronchial disease (ISO)

chronic inflammatory demyelinating polyradiculoneuropathy (ISO)

Human Influenza (ISO)

hypertension (IEP)

lymphopenia (IEP)

Respirovirus Infections (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

1,2-dimethylhydrazine (ISO)

1-octadec-9-enoylglycero-3-phosphate (ISO)

17beta-estradiol (EXP,ISO)

17beta-estradiol 3-benzoate (EXP)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4,4'-trichlorobiphenyl (ISO)

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-aza-2'-deoxycytidine (ISO)

6-propyl-2-thiouracil (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

aldehydo-D-glucose (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (ISO)

Azoxymethane (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

cefaloridine (EXP)

chlorpyrifos (ISO)

copper atom (EXP)

copper(0) (EXP)

D-glucose (ISO)

decabromodiphenyl ether (ISO)

dextran sulfate (ISO)

diiodine (ISO)

dimethyl sulfoxide (ISO)

fructose (ISO)

fulvestrant (ISO)

furan (EXP)

glucose (ISO)

glycidol (ISO)

hydralazine (ISO)

lead diacetate (ISO)

lead(0) (ISO)

lipopolysaccharide (ISO)

N-nitrosodiethylamine (EXP)

nickel atom (ISO)

nickel sulfate (ISO)

ozone (ISO)

PCB138 (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

sodium fluoride (ISO)

testosterone (EXP)

tetrachloroethene (ISO)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

valproic acid (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

antimicrobial humoral immune response mediated by antimicrobial peptide (ISO)

cell chemotaxis (IEA,ISO)

chemotaxis (IEA)

immune response (IEA)

negative regulation of leukocyte tethering or rolling (IEA,ISO)

positive regulation of cell-matrix adhesion (IEA,ISO)

positive regulation of cytosolic calcium ion concentration (ISO)

response to nutrient (IEP)

signal transduction (IEA)

Cellular Component

extracellular region (IEA)

extracellular space (IEA,ISO)

secretory granule (ISO)

Molecular Function

chemokine activity (IEA,ISO)

cytokine activity (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

chemokine mediated signaling pathway (IEA)

cytokine mediated signaling pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Inflammation of the respiratory tract is associated with CCL28 and CCR10 expression in a murine model of allergic asthma.	English K, etal., Immunol Lett. 2006 Mar 15;103(2):92-100. Epub 2005 Oct 21.
2.	Serum mucosa-associated epithelial chemokine in atopic dermatitis: a specific marker for severity.	Ezzat MH and Shaheen KY, Indian J Dermatol. 2009 Jul;54(3):229-36.
3.	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.
4.	Induction of high-affinity IgE receptor on lung dendritic cells during viral infection leads to mucous cell metaplasia.	Grayson MH, etal., J Exp Med. 2007 Oct 29;204(11):2759-69. Epub 2007 Oct 22.
5.	Renal NF-kappaB activation and TNF-alpha upregulation correlate with salt-sensitive hypertension in Dahl salt-sensitive rats.	Gu JW, etal., Am J Physiol Regul Integr Comp Physiol. 2006 Dec;291(6):R1817-24. Epub 2006 Jul 13.
6.	Long-term high salt diet causes hypertension and alters renal cytokine gene expression profiles in Sprague-Dawley rats.	Gu JW, etal., Beijing Da Xue Xue Bao. 2009 Oct 18;41(5):505-15.
7.	Temporal production of CCL28 corresponds to eosinophil accumulation and airway hyperreactivity in allergic airway inflammation.	John AE, etal., Am J Pathol. 2005 Feb;166(2):345-53.
8.	Targeting of myelin protein zero in a spontaneous autoimmune polyneuropathy.	Kim HJ, etal., J Immunol. 2008 Dec 15;181(12):8753-60.
9.	Plasmids encoding the mucosal chemokines CCL27 and CCL28 are effective adjuvants in eliciting antigen-specific immunity in vivo.	Kutzler MA, etal., Gene Ther. 2010 Jan;17(1):72-82. Epub 2009 Oct 22.
10.	A common mucosal chemokine (mucosae-associated epithelial chemokine/CCL28) selectively attracts IgA plasmablasts.	Lazarus NH, etal., J Immunol 2003 Apr 1;170(7):3799-805.
11.	Depletion of CD8alpha+ lymphocytes attenuates CCL28 expression in villus epithelia in rats.	Lee JS, etal., Immunol Lett. 2009 May 14;124(1):50-4. Epub 2009 Apr 22.
12.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
13.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
14.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
15.	GOA pipeline	RGD automated data pipeline
16.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
17.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:10781587	PMID:12538707	PMID:18308860	PMID:19199708

Genomics

Comparative Map Data

Ccl28
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	53,334,071 - 53,358,709 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	53,334,071 - 53,358,709 (+)	Ensembl				GRCr8
mRatBN7.2	2	51,601,354 - 51,625,999 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	51,601,331 - 51,625,997 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	2	58,720,298 - 58,745,016 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	56,779,014 - 56,803,736 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	51,713,145 - 51,737,860 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	52,379,341 - 52,403,979 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	52,379,341 - 52,404,246 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	2	70,743,251 - 70,767,888 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	51,688,294 - 51,712,931 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	47,256,317 - 47,280,946 (+)	NCBI		Celera
RGSC_v3.1	2	51,616,526 - 51,641,162 (+)	NCBI
Cytogenetic Map	2	q15	NCBI

CCL28
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	43,356,975 - 43,412,391 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	43,376,645 - 43,412,391 (-)	Ensembl			hg38	GRCh38
GRCh37	5	43,376,747 - 43,412,493 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	43,417,357 - 43,448,245 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	5	43,412,504 - 43,448,229	NCBI
Celera	5	43,272,718 - 43,303,607 (-)	NCBI		Celera
Cytogenetic Map	5	p12	NCBI
HuRef	5	43,332,397 - 43,363,621 (-)	NCBI		HuRef
CHM1_1	5	43,382,924 - 43,413,832 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	5	43,609,806 - 43,665,221 (-)	NCBI		T2T-CHM13v2.0

Ccl28
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	120,085,355 - 120,115,895 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	120,085,355 - 120,115,895 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	13	119,623,819 - 119,654,359 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	119,623,819 - 119,654,359 (+)	Ensembl			mm10	GRCm38
Celera	13	124,002,981 - 124,040,196 (+)	NCBI		Celera
Cytogenetic Map	13	D2.3	NCBI

Ccl28
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955446	18,902,636 - 18,925,561 (+)	Ensembl
ChiLan1.0	NW_004955446	18,902,465 - 18,925,178 (+)	NCBI	ChiLan1.0	ChiLan1.0

CCL28
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	4	66,938,933 - 66,952,819 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	65,092,559 - 65,106,433 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	66,977,643 - 66,998,420 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	72,012,579 - 72,046,074 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	72,012,579 - 72,046,031 (+)	Ensembl			panPan2	panpan1.1

CCL28
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	66,567,139 - 66,597,310 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	66,566,989 - 66,597,459 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	66,327,898 - 66,358,117 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	67,059,634 - 67,089,860 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	67,058,916 - 67,090,314 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	66,817,571 - 66,848,315 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	66,947,140 - 66,977,927 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	67,484,045 - 67,514,790 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Ccl28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	209,873,838 - 209,888,593 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936480	18,810,406 - 18,824,894 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936480	18,819,012 - 18,824,981 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCL28
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	16	27,985,167 - 28,010,858 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	16	27,990,024 - 28,010,859 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	16	29,377,476 - 29,399,143 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCL28
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	4	42,163,094 - 42,194,517 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666071	32,639,127 - 32,653,708 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccl28
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624759	11,759,048 - 11,784,493 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624759	11,759,304 - 11,781,284 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Ccl28
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	3	177,247,259 - 177,268,851 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Ccl28
113 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	239
Count of miRNA genes:	175
Interacting mature miRNAs:	194
Transcripts:	ENSRNOT00000023618
Prediction methods:	Microtar, 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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10755430	Coatc6	Coat color QTL 6		0.02576	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	2	13325041	58325041	Rat
7387318	Stl32	Serum triglyceride level QTL 32	3.2	0.0003	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	2	24117813	69117813	Rat
10755436	Coatc8	Coat color QTL 8		0.02431	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	2	36750344	81750344	Rat
1298074	Bp164	Blood pressure QTL 164		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	44537979	205135428	Rat
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	20695736	231474293	Rat
1358917	Cm42	Cardiac mass QTL 42	2.82		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	206613235	Rat
1300160	Hrtrt3	Heart rate QTL 3	3.62		heart pumping trait (VT:2000009)	absolute change in heart rate (CMO:0000534)	2	35614083	53462005	Rat
1579916	Bp270	Blood pressure QTL 270		0.003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	16051883	61051883	Rat
731167	Glom4	Glomerulus QTL 4	2.4	0.0082	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	2	22038044	67038044	Rat
731166	Mamtr2	Mammary tumor resistance QTL 2		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	9623581	54623581	Rat
1358913	Cm41	Cardiac mass QTL 41	2.73		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	206613235	Rat
152025242	Bw191	Body weight QTL 191	3.62		body mass (VT:0001259)		2	40306867	124537199	Rat
1302794	Stl27	Serum triglyceride level QTL 27	4.4	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	2	27148328	145807373	Rat
9590095	Sffal3	Serum free fatty acids level QTL 3	6.78	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	2	28889991	73889991	Rat
70174	BpQTLCluster2	Blood pressure QTL cluster 2	4.24		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	2	41801363	104744824	Rat
1331764	Bp205	Blood pressure QTL 205	3.476		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	14368707	59368707	Rat
1358901	Cm38	Cardiac mass QTL 38	2		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	159440891	Rat
631208	Bw1	Body weight QTL1	5.09		mesenteric fat pad mass (VT:0010427)	mesenteric fat pad weight to body weight ratio (CMO:0000654)	2	44904355	85286097	Rat
1331760	Bp206	Blood pressure QTL 206	3.62454		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	4265106	205135428	Rat
1358899	Kidm23	Kidney mass QTL 23	3.88		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27148328	159440891	Rat
1358908	Bw49	Body weight QTL 49	3.36		body mass (VT:0001259)	body weight (CMO:0000012)	2	27148557	159440760	Rat
1300155	Bp174	Blood pressure QTL 174	4.09		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	2	44537979	112567334	Rat
2293835	Kiddil5	Kidney dilation QTL 5	3.8		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	44537979	159440891	Rat
1358910	Kidm27	Kidney mass QTL 27	5.77		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27148328	159440891	Rat
61355	Bp36	Blood pressure QTL 36	2.9		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	2	7605533	104774005	Rat
1358911	Kidm28	Kidney mass QTL 28	5.42		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27148328	159440891	Rat
631266	Bp132	Blood pressure QTL 132		0.0005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	47856345	205135428	Rat
1358904	Cm39	Cardiac mass QTL 39	2.26		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	159440891	Rat
1354617	Bp240	Blood pressure QTL 240	4		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	28652666	83465677	Rat
1359034	Bp274	Blood pressure QTL 274			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	51266859	96266859	Rat
2293843	Kiddil6	Kidney dilation QTL 6	3.1		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	44537979	184731399	Rat
1358887	Bw50	Body weight QTL 50	2.39		body mass (VT:0001259)	body weight (CMO:0000012)	2	27148557	159440760	Rat
2306903	Bp336	Blood pressure QTL 336		0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	38426449	111295694	Rat
1298085	Bp165	Blood pressure QTL 165		0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	44537979	205135428	Rat
2290453	Scl55	Serum cholesterol level QTL 55	2.83		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	2	28652666	139067443	Rat
152025206	Hrtrt23	Heart rate QTL 23	5.98		heart pumping trait (VT:2000009)		2	30219200	171802126	Rat
1358894	Kidm24	Kidney mass QTL 24	4.03		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27148328	159440891	Rat
731184	Mamtr4	Mammary tumor resistance QTL 4		0.0003	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	18227137	63227137	Rat
152025204	Hrtrt22	Heart rate QTL 22	5.6		heart pumping trait (VT:2000009)		2	30219200	171802126	Rat
61371	Edpm1	Estrogen-dependent pituitary mass QTL 1	4	0.05	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	2	36868643	81868643	Rat
1354601	Slep1	Serum leptin concentration QTL 1	5.39		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	2	44904355	89904355	Rat
1582246	Cm60	Cardiac mass QTL 60	5.8		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	33269996	78269996	Rat
1354603	Bp243	Blood pressure QTL 243	3.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	28652666	73652666	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

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	sensory system	visual system
16	10	19	64	63	62	31	33	31	6	205	73	47	77	77	31	7	7

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053700	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC098186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF361490	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000002	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000082614 ⟹ ENSRNOP00000068769

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	52,397,175 - 52,404,246 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000084486 ⟹ ENSRNOP00000074357

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	2	53,334,071 - 53,358,709 (+)	Ensembl
mRatBN7.2 Ensembl	2	51,601,331 - 51,625,997 (+)	Ensembl
Rnor_6.0 Ensembl	2	52,379,341 - 52,403,977 (+)	Ensembl

RefSeq Acc Id:

NM_053700 ⟹ NP_446152

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	53,334,071 - 53,358,709 (+)	NCBI
mRatBN7.2	2	51,601,354 - 51,625,999 (+)	NCBI
Rnor_6.0	2	52,379,341 - 52,403,979 (+)	NCBI
Rnor_5.0	2	70,743,251 - 70,767,888 (+)	NCBI
RGSC_v3.4	2	51,688,294 - 51,712,931 (+)	RGD
Celera	2	47,256,317 - 47,280,946 (+)	RGD

Sequence:

show sequence

ACAGCCTCACCGGTCATTGCCAGATTCAGCTGGTCAGGCGGGAATGCAGCAAGCAGGACTTACC
CTCGTGGCTGTGGCTGTGTGTGTGGCCTTTCGAACCTCGGAAGCCATACTTCCCATAGCTTCCA
GCTGTTGCACTGAAGTTTCTCATCATATTCCCAGAAGACTTCTGGAAAGAGTGAATTCGTGCAG
CATCCAGAGAGCTGATGGGGACTGTGACCTGGCTGCTGTCATCCTTCATGTTAAACGTAGAAGA
ATCTGCGTCAGCCCGCACAATCCAACTTTGAAGCGGTGGATGAGCGCCTCAGAGATGAAGAATG
GCAAAGAAAATCTCTGCCCCAGAAAGAAACAAGACAGTGGGAAGGACAGAAAAGGGCACACCCC
GAGAAAGCACGGAAAACACGGAACACGCAGAATACATGGGACACACGACCACGAAGCCCCTCGT
TAGAACAGACGCATGGACCTACAGTGAACTCAAGTGAACTGGCCCAGACTTGGTTATAAATTTC
TCAGCTGAATCTTCCTATTGACACCTAAAGGTGTTTTGCTTTGTTTTGTTAATGAGTAACCACA
GCTAAGTCTGTAAGCACTGGGTATGCTCAATCCCAGCACCAAAAGCAAAACAAACAAAACTGAA
GCTATCCTCAGATTTTGTCTAGAAGGATAGCATTCTTCTGTTCAACTCTGGCACACCTTTGAAA
GGCAATCCTTGTATACCCAGCATCATCCAAGTGCAGGATAAATGCCAAAGAAAACAACACTGAA
TTTAAATTGTAGTAAAATACAATAATGTGAAATCAAAGCACAGTCACAAATTTTAAATTTATTT
TGTATGCTATATTTTAAAATCTGGTTGCTATGGTTTGAGTAAGTGTCCTCAAAGGCCTGTGTGT
ATTTTTTTAAGATTTGTTTATTTTACGCATATGAGTACACTCTTGCTGTCTTCAGACACATCAG
AAGAGGGCATCAGATCCCATTACAGATGGCTGTGAGCCACCAAGCAGTTGCTGGGACTTGAACT
CATGACCTCTGGAAGAGCAGTCAGTGCTCTTAAGCACTGAGCCATCTCTCCAGCCCACAATGTC
TGTGTATTGAAGGCTTGCTTGTTCTTCATCCTGTGGTGCTCCTGGGAAGCAGTGGGAAATTTGA
AATGTGGAGTCTAGTGGAACAAACTTGGGTCCCCGGGGGTGTGTCCTGTCTTTGTTTCATACCA
CCAAGAAGGAAGCAGCTTCTTTAGTATTGTATTTCCACCACAAAATATTCTGTCTGCCACAGGC
CCAGTGGATCATGGACTGAAACCTCTAAAACTGAGAGCCAAAATAAACCTTTCTGCTTTTTAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_446152	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAK52773	(Get FASTA)	NCBI Sequence Viewer
	EDM10422	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000074357
	ENSRNOP00000074357.3

RefSeq Acc Id:	NP_446152 ⟸ NM_053700
- Peptide Label:	precursor
- UniProtKB:	A6I5W4 (UniProtKB/TrEMBL), Q91Y39 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQQAGLTLVAVAVCVAFRTSEAILPIASSCCTEVSHHIPRRLLERVNSCSIQRADGDCDLAAVI LHVKRRRICVSPHNPTLKRWMSASEMKNGKENLCPRKKQDSGKDRKGHTPRKHGKHGTRRIHGT HDHEAPR hide sequence

Ensembl Acc Id:

ENSRNOP00000074357 ⟸ ENSRNOT00000084486

Ensembl Acc Id:

ENSRNOP00000068769 ⟸ ENSRNOT00000082614

Protein Domains

Chemokine interleukin-8-like

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-G3V896-F1-model_v2	AlphaFold	G3V896	1-135	view protein structure

Transcriptome

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

Promoters

RGD ID:

13691157

Promoter ID:

EPDNEW_R1682

Type:

initiation region

Name:

Ccl28_1

Description:

C-C motif chemokine ligand 28

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	2	52,379,316 - 52,379,376	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:619937	AgrOrtholog
BioCyc Gene	G2FUF-54282	BioCyc
Ensembl Genes	ENSRNOG00000059640	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000084486	ENTREZGENE
	ENSRNOT00000084486.3	UniProtKB/TrEMBL
Gene3D-CATH	2.40.50.40	UniProtKB/TrEMBL
InterPro	Chemokine_b/g/d	UniProtKB/TrEMBL
	Chemokine_CC_CS	UniProtKB/TrEMBL
	Chemokine_IL8-like_dom	UniProtKB/TrEMBL
	Interleukin_8-like_sf	UniProtKB/TrEMBL
KEGG Report	rno:114492	UniProtKB/TrEMBL
NCBI Gene	114492	ENTREZGENE
PANTHER	C-C MOTIF CHEMOKINE 28	UniProtKB/TrEMBL
	SMALL INDUCIBLE CYTOKINE A	UniProtKB/TrEMBL
Pfam	IL8	UniProtKB/TrEMBL
PhenoGen	Ccl28	PhenoGen
PROSITE	SMALL_CYTOKINES_CC	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000059640	RatGTEx
Superfamily-SCOP	Chemokine_IL8	UniProtKB/TrEMBL
UniProt	A6I5W4	ENTREZGENE, UniProtKB/TrEMBL
	G3V896_RAT	UniProtKB/TrEMBL
	Q91Y39	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-08	Ccl28	C-C motif chemokine ligand 28	Ccl28	chemokine (C-C motif) ligand 28	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Ccl28	chemokine (C-C motif) ligand 28		CC chemokine CCL28	Name updated	1299863	APPROVED
2004-09-10	Ccl28	CC chemokine CCL28	Scya28		Symbol and Name updated	1299863	APPROVED
2002-08-07	Scya28	CC chemokine CCL28			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Annotations - KEGG (archival)