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Gene: Cxcl13 (C-X-C motif chemokine ligand 13) Rattus norvegicus

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Symbol:

Cxcl13

Name:

C-X-C motif chemokine ligand 13

RGD ID:

1564256

Description:

Predicted to enable chemokine receptor binding activity; fibroblast growth factor binding activity; and heparin binding activity. Predicted to be involved in several processes, including cell chemotaxis; regulation of chemotaxis; and response to bacterium. Predicted to act upstream of or within lymph node development. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human CXCL13 (C-X-C motif chemokine ligand 13); PARTICIPATES IN chemokine mediated signaling pathway; cytokine mediated signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate; 17beta-estradiol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

C-X-C motif chemokine 13; chemokine (C-X-C motif) ligand 13; LOC498335; similar to Small inducible cytokine B13 precursor (CXCL13) (B lymphocyte chemoattractant) (CXC chemokine BLC)

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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	14	13,912,858 - 13,917,920 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	14	13,912,858 - 13,917,920 (-)	Ensembl				GRCr8
mRatBN7.2	14	13,608,894 - 13,613,965 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	13,608,902 - 13,613,933 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	14	13,576,171 - 13,581,214 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	14,876,016 - 14,881,059 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	13,592,498 - 13,597,541 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	15,253,146 - 15,258,221 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	15,253,125 - 15,258,207 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	14	15,193,472 - 15,198,546 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	14	15,126,332 - 15,131,368 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	14	13,649,303 - 13,654,347 (-)	NCBI		Celera
Cytogenetic Map	14	p22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

endometriosis (ISO)

Experimental Liver Cirrhosis (ISO)

malignant mesothelioma (ISO)

Recurrence (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (EXP,ISO)

1-naphthyl isothiocyanate (EXP)

1-nitropyrene (ISO)

17beta-estradiol (EXP)

17beta-estradiol 3-benzoate (EXP)

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

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

2,4,6-trinitrobenzenesulfonic acid (ISO)

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3-chloropropane-1,2-diol (EXP)

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

7,12-dimethyltetraphene (ISO)

acrylamide (EXP)

aflatoxin B1 (EXP,ISO)

alpha-Zearalanol (EXP)

andrographolide (ISO)

antirheumatic drug (ISO)

asperentin (ISO)

benzo[a]pyrene (EXP,ISO)

benzo[b]fluoranthene (ISO)

Benzo[k]fluoranthene (ISO)

beta-naphthoflavone (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

bleomycin A2 (ISO)

Brevianamide A (ISO)

bromobenzene (EXP)

Butylbenzyl phthalate (ISO)

cadmium dichloride (EXP)

carbamazepine (ISO)

carbon nanotube (ISO)

cefaloridine (EXP)

CGP 52608 (ISO)

chenodeoxycholic acid (ISO)

choline (ISO)

chrysene (ISO)

ciguatoxin CTX1B (ISO)

cyclosporin A (EXP,ISO)

decabromodiphenyl ether (EXP)

deoxycholic acid (ISO)

dextran sulfate (ISO)

dibutyl phthalate (EXP,ISO)

dibutylstannane (ISO)

diclofenac (ISO)

diethyl phthalate (ISO)

diisobutyl phthalate (ISO)

diisononyl phthalate (ISO)

doxorubicin (ISO)

epoxiconazole (ISO)

fentanyl (EXP)

furan (EXP)

genistein (ISO)

gentamycin (EXP)

glycochenodeoxycholic acid (ISO)

glycocholic acid (ISO)

glycodeoxycholic acid (ISO)

graphene oxide (ISO)

iron(2+) sulfate (anhydrous) (ISO)

isoprenaline (ISO)

lead nitrate (ISO)

lidocaine (EXP)

lipopolysaccharide (ISO)

mercury atom (ISO)

mercury(0) (ISO)

metformin (EXP)

methylmercury chloride (EXP,ISO)

mifepristone (ISO)

mycotoxin (ISO)

N,N-diethyl-m-toluamide (ISO)

N-nitrosodimethylamine (EXP)

neoechinulin A (ISO)

nickel dichloride (ISO)

nitrofen (EXP)

O-methyleugenol (ISO)

okadaic acid (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

perfluorooctanoic acid (EXP)

phenobarbital (ISO)

pirinixic acid (ISO)

rotenone (EXP)

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

serpentine asbestos (ISO)

silicon dioxide (EXP,ISO)

sirolimus (EXP)

sodium arsenite (ISO)

sodium dichromate (EXP)

sterigmatocystin (ISO)

succimer (ISO)

sunitinib (ISO)

Sunset Yellow FCF (ISO)

taurocholic acid (ISO)

testosterone (EXP)

tetrachloromethane (ISO)

tetraphene (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

tofacitinib (ISO)

toluene 2,4-diisocyanate (ISO)

tributylstannane (ISO)

trichloroethene (EXP)

trimellitic anhydride (ISO)

vinclozolin (EXP)

zinc dichloride (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

antimicrobial humoral immune response mediated by antimicrobial peptide (IBA,ISO)

B cell chemotaxis (ISO)

B cell chemotaxis across high endothelial venule (ISO)

cell surface receptor signaling pathway (ISO)

cell-cell signaling (ISO)

cellular response to lipopolysaccharide (IBA)

chemokine-mediated signaling pathway (ISO)

chemotaxis (IEA)

defense response (IEA)

defense response to bacterium (ISO)

endothelial cell chemotaxis to fibroblast growth factor (ISO)

immune response (IEA)

inflammatory response (IBA)

lymph node development (ISO)

lymphocyte chemotaxis across high endothelial venule (ISO)

negative regulation of endothelial cell chemotaxis to fibroblast growth factor (ISO)

neutrophil chemotaxis (IBA)

positive regulation of cell-cell adhesion mediated by integrin (ISO)

positive regulation of cytosolic calcium ion concentration (ISO)

positive regulation of integrin activation (ISO)

positive regulation of T cell chemotaxis (ISO)

regulation of Rap protein signal transduction (ISO)

response to lipid (IEA)

Cellular Component

extracellular region (IEA,ISO)

extracellular space (IBA,IEA,ISO)

Molecular Function

CCR10 chemokine receptor binding (ISO)

chemokine activity (IBA,IEA,ISO)

CXCR chemokine receptor binding (IBA)

CXCR3 chemokine receptor binding (ISO)

CXCR5 chemokine receptor binding (ISO)

cytokine activity (IEA)

fibroblast growth factor binding (ISO)

heparin binding (ISO)

receptor ligand activity (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.	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.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	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.

Additional References at PubMed

PMID:9463416	PMID:10706668	PMID:11554781	PMID:11708770	PMID:12732660	PMID:12949249	PMID:15972452	PMID:17562761	PMID:17652619	PMID:19783990	PMID:23460747	PMID:27892451
PMID:28359934	PMID:31589828	PMID:35075718	PMID:37622691	PMID:38526919

Genomics

Comparative Map Data

Cxcl13
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	13,912,858 - 13,917,920 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	14	13,912,858 - 13,917,920 (-)	Ensembl				GRCr8
mRatBN7.2	14	13,608,894 - 13,613,965 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	13,608,902 - 13,613,933 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	14	13,576,171 - 13,581,214 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	14,876,016 - 14,881,059 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	13,592,498 - 13,597,541 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	15,253,146 - 15,258,221 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	15,253,125 - 15,258,207 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	14	15,193,472 - 15,198,546 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	14	15,126,332 - 15,131,368 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	14	13,649,303 - 13,654,347 (-)	NCBI		Celera
Cytogenetic Map	14	p22	NCBI

CXCL13
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	4	77,511,753 - 77,611,834 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	4	77,511,753 - 77,611,834 (+)	Ensembl			hg38	GRCh38
GRCh37	4	78,432,907 - 78,532,988 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	78,651,931 - 78,752,010 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	4	78,790,084 - 78,890,165	NCBI
Celera	4	75,734,287 - 75,834,362 (+)	NCBI		Celera
Cytogenetic Map	4	q21.1	NCBI
HuRef	4	74,184,783 - 74,284,964 (+)	NCBI		HuRef
CHM1_1	4	78,409,854 - 78,509,941 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	4	80,852,591 - 80,952,672 (+)	NCBI		T2T-CHM13v2.0

Cxcl13
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	96,104,785 - 96,108,927 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	96,104,810 - 96,108,927 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	5	95,956,939 - 95,961,068 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	95,956,951 - 95,961,068 (+)	Ensembl			mm10	GRCm38
MGSCv37	5	96,385,958 - 96,390,087 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	5	96,197,241 - 96,201,370 (+)	NCBI		MGSCv36	mm8
Celera	5	93,306,539 - 93,310,668 (+)	NCBI		Celera
Cytogenetic Map	5	E3	NCBI
cM Map	5	47.29	NCBI

Cxcl13
(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_004955433	2,123,117 - 2,129,147 (+)	Ensembl
ChiLan1.0	NW_004955433	2,123,190 - 2,129,119 (+)	NCBI	ChiLan1.0	ChiLan1.0

CXCL13
(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	3	52,453,375 - 52,460,491 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	52,639,881 - 52,646,923 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	46,583,759 - 46,589,865 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	52,428,702 - 52,434,803 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	52,428,702 - 52,434,803 (-)	Ensembl			panPan2	panpan1.1

CXCL13
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	32	2,047,277 - 2,053,277 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	32	2,047,315 - 2,052,833 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	32	39,837,784 - 39,843,805 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	32	2,073,585 - 2,079,610 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	32	2,073,621 - 2,081,627 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	32	2,071,444 - 2,077,479 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	32	2,019,776 - 2,025,803 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	32	38,148,529 - 38,154,567 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Cxcl13
(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_024405285	10,191,903 - 10,197,633 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936676	1,309,625 - 1,313,933 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936676	1,309,625 - 1,314,532 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CXCL13
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	8	73,071,261 - 73,077,342 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	77,268,254 - 77,274,314 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CXCL13
(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	7	26,101,489 - 26,108,430 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	7	26,102,714 - 26,108,690 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666037	4,454,575 - 4,460,831 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Cxcl13
(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_004624757	13,488,670 - 13,494,837 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624757	13,488,787 - 13,494,831 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Cxcl13
(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	11	8,264,509 - 8,269,554 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Cxcl13
19 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	91
Count of miRNA genes:	71
Interacting mature miRNAs:	83
Transcripts:	ENSRNOT00000039383
Prediction methods:	Miranda, Targetscan
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
1300114	Srn2	Serum renin concentration QTL 2	3.27		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	14	3957878	21572472	Rat
2293089	Iddm31	Insulin dependent diabetes mellitus QTL 31	4.7		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	14	3957878	18558812	Rat
7411573	Bw139	Body weight QTL 139	4.7	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	14	1	40068101	Rat
9589814	Gluco67	Glucose level QTL 67	4.54	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	14	1	40068101	Rat
731183	Pia20	Pristane induced arthritis QTL 20	3.55		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	9393298	39411170	Rat
631212	Bw5	Body weight QTL5	5.43		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	14	11334906	30674469	Rat
2302277	Gluco38	Glucose level QTL 38	5.8		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11334716	28389666	Rat
1331740	Bw26	Body weight QTL 26	3.028		body mass (VT:0001259)	body weight (CMO:0000012)	14	3957878	31121464	Rat
71117	Niddm17	Non-insulin dependent diabetes mellitus QTL 17	2.35		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	14	1	17877928	Rat
1358296	Ael3	Aortic elastin QTL 3	3.7	0.00051	aorta elastin amount (VT:0003905)	aortic elastin	14	8621398	53621398	Rat
70195	Mcs8	Mammary carcinoma susceptibility QTL 8	4.28		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	14	3957878	24886169	Rat
631839	Niddm37	Non-insulin dependent diabetes mellitus QTL 37	3.37		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11334716	100078267	Rat
634352	Apr6	Acute phase response QTL 6	3.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	14	1	41415516	Rat
70204	Niddm20	Non-insulin dependent diabetes mellitus QTL 20	5.1	0.000008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	1	31893212	Rat
2302045	Pia39	Pristane induced arthritis QTL 39	4.9	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G2a level (CMO:0002116)	14	8621398	53621398	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	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	61	157	91	90	59	25	59	6	279	119	11	134	77	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001017496	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001419199	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC088260	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474022	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234803	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000039383 ⟹ ENSRNOP00000034304

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	14	13,912,858 - 13,917,920 (-)	Ensembl
mRatBN7.2 Ensembl	14	13,608,902 - 13,613,933 (-)	Ensembl
Rnor_6.0 Ensembl	14	15,253,125 - 15,258,207 (-)	Ensembl

RefSeq Acc Id:

NM_001017496 ⟹ NP_001017496

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	14	13,912,858 - 13,917,920 (-)	NCBI
mRatBN7.2	14	13,608,894 - 13,613,956 (-)	NCBI
Rnor_6.0	14	15,253,149 - 15,258,185 (-)	NCBI
Rnor_5.0	14	15,193,472 - 15,198,546 (-)	NCBI
RGSC_v3.4	14	15,126,332 - 15,131,368 (-)	RGD
Celera	14	13,649,303 - 13,654,347 (-)	RGD

Sequence:

show sequence

GTGAACTCCACCTCCAGGCAGAATGAGGCTCTGCACCGCAGCCCTGCTTCTTCTACTGGCCATC
TGCCTCCCTCCAGGCCACGGTATTCTGGAGACCCATTACACAAACTTGAAATGTAGGTGTTCCA
AGGTGAGCTCGACCTTTATCAATCTAATTCTCGTAGATTGGATTCAAGTTATACGCCCTGGGAA
TGGCTGCCCCAAAACTGAAATCATTTTCTGGACCAAGGCCAAGAAAGCTATATGTGTGAATCCT
ACTGCCAGATGGTTACCAAAAGTATTAAAATTTGTCCGAAGAAGTATTACTTCAACTCCCCAAG
CTCCAGTGAGTAAGAAAAGAGCTGCCTGAAGCCACTGTCACCCCAAAAGACACCTGCACCCTTT
CTTAATCCCTGCTCGGAATCTTAGTGTTACGTTCTTAGTTGAAGAATTTCCAAGAAAATAACTT
CCCTCTACAAACACGGCTGTAGATTAAAAGAAAAAAATCCTGCAGTAGCTGAGAGGAGACACTC
GAGCTCCTTCCCATACTCAACCCATATTCTTGTTCCTTAAGGGAGGATATTTTCGAGCAGGCAT
TTAGTGACAAGCCACTTTGGTAATAGACCTGTTGTTTAGTGTTAAACTATCCTAGACCCTAGAG
GAATAAAAGCATACATGTCGAATCTGAACCCATAGCTCCTACTAACAAGAGGTTTATGAGATGG
ACTTCAGTTAGTTTGCACCCTTGCAAAAATCAGGCTTCCAGAATAGTTTCCAGAAGGTCCCTAA
GAAGCAGACGCATTACCAGCCTAAGGTGATGCAGAGCAGGTCTCCTTTAGAGAGAATCTTCATG
AGGGAAATAATGCTTCGACTTTGAAAGGTTGCTTGTACAAAATTTATTGTCTTGGATTAAAACC
AGTAACACTGAAAGATCCTCAGCTTAAAGTTCCAGGCTCCTTAACAGTATACAAATATATTCCT
TTGCACTGTGACCCTGCTAATCTATTTTTATTATTCACATCTTTCACACAGACAAAATACCAGT
CTCTTGTATCAAATTCTTTAACGTTTCCTATTCATCCAGTGTCATTCAATAAACTTAATCAAAT
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001419199 ⟹ NP_001406128

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	14	13,912,858 - 13,917,920 (-)	NCBI
mRatBN7.2	14	13,608,894 - 13,613,956 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001017496	(Get FASTA)	NCBI Sequence Viewer
	NP_001406128	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH88260	(Get FASTA)	NCBI Sequence Viewer
	EDL99643	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000034304
	ENSRNOP00000034304.4

RefSeq Acc Id:	NP_001017496 ⟸ NM_001017496
- Peptide Label:	isoform 2 precursor
- UniProtKB:	Q5I0J6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MRLCTAALLLLLAICLPPGHGILETHYTNLKCRCSKVSSTFINLILVDWIQVIRPGNGCPKTEI IFWTKAKKAICVNPTARWLPKVLKFVRRSITSTPQAPVSKKRAA hide sequence

Ensembl Acc Id:

ENSRNOP00000034304 ⟸ ENSRNOT00000039383

RefSeq Acc Id:	NP_001406128 ⟸ NM_001419199
- Peptide Label:	isoform 1 precursor
- UniProtKB:	F7F7W7 (UniProtKB/TrEMBL), A6K673 (UniProtKB/TrEMBL)

Protein Domains

Chemokine interleukin-8-like

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-F7F7W7-F1-model_v2	AlphaFold	F7F7W7	1-109	view protein structure

Transcriptome

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

Promoters

RGD ID:

13699204

Promoter ID:

EPDNEW_R9729

Type:

single initiation site

Name:

Cxcl13_1

Description:

C-X-C motif chemokine ligand 13

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	14	15,258,208 - 15,258,268	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1564256	AgrOrtholog
BioCyc Gene	G2FUF-16317	BioCyc
Ensembl Genes	ENSRNOG00000024899	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000039383	ENTREZGENE
	ENSRNOT00000039383.6	UniProtKB/TrEMBL
Gene3D-CATH	2.40.50.40	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7375992	IMAGE-MGC_LOAD
InterPro	Chemokine_b/g/d	UniProtKB/TrEMBL
	Chemokine_IL8	UniProtKB/TrEMBL
	CXC_Chemokine_domain	UniProtKB/TrEMBL
	CXC_chmkine_smll	UniProtKB/TrEMBL
	Interleukin_8-like_sf	UniProtKB/TrEMBL
KEGG Report	rno:498335	UniProtKB/TrEMBL
MGC_CLONE	MGC:109086	IMAGE-MGC_LOAD
NCBI Gene	498335	ENTREZGENE
PANTHER	C-X-C MOTIF CHEMOKINE 13	UniProtKB/TrEMBL
	SMALL INDUCIBLE CYTOKINE A	UniProtKB/TrEMBL
Pfam	IL8	UniProtKB/TrEMBL
PhenoGen	Cxcl13	PhenoGen
PRINTS	INTERLEUKIN8	UniProtKB/TrEMBL
	SMALLCYTKCXC	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000024899	RatGTEx
SMART	SCY	UniProtKB/TrEMBL
Superfamily-SCOP	Chemokine_IL8	UniProtKB/TrEMBL
UniProt	A6K673	ENTREZGENE, UniProtKB/TrEMBL
	F7F7W7	ENTREZGENE, UniProtKB/TrEMBL
	Q5I0J6	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-08	Cxcl13	C-X-C motif chemokine ligand 13	Cxcl13	chemokine (C-X-C motif) ligand 13	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-05	Cxcl13	chemokine (C-X-C motif) ligand 13	LOC498335	similar to Small inducible cytokine B13 precursor (CXCL13) (B lymphocyte chemoattractant) (CXC chemokine BLC)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC498335	similar to Small inducible cytokine B13 precursor (CXCL13) (B lymphocyte chemoattractant) (CXC chemokine BLC)			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)

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)