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Gene: Sdf4 (stromal cell derived factor 4) Rattus norvegicus

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Symbol:

Sdf4

Name:

stromal cell derived factor 4

RGD ID:

621521

Description:

Enables identical protein binding activity. Involved in several processes, including UV protection; response to ethanol; and zymogen granule exocytosis. Located in late endosome. Colocalizes with plasma membrane. Orthologous to human SDF4 (stromal cell derived factor 4); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

45 kDa calcium-binding protein; cab45; MGC93237; SDF-4; stromal cell-derived factor 4

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):	SDF4 (stromal cell derived factor 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Sdf4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sdf4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SDF4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SDF4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sdf4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SDF4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SDF4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sdf4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Sdf4 (stromal cell derived factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SDF4 (stromal cell derived factor 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	SDF4 (stromal cell derived factor 4)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sdf4 (stromal cell derived factor 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sdf4 (stromal cell derived factor 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG31475	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	C56C10.9	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	C56C10.9	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	sdf4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

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	5	171,868,591 - 171,885,827 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	171,868,563 - 171,888,884 (+)	Ensembl				GRCr8
mRatBN7.2	5	166,586,581 - 166,606,661 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	166,586,390 - 166,604,521 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	169,290,258 - 169,307,133 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	171,111,682 - 171,128,555 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	171,074,216 - 171,091,087 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	173,425,922 - 173,444,478 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	173,425,907 - 173,444,620 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	176,901,543 - 176,918,497 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	172,836,094 - 172,853,044 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	164,787,377 - 164,804,459 (+)	NCBI		Celera
RGSC_v3.1	5	172,850,036 - 172,863,284 (+)	NCBI
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

schizophrenia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

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

4,4'-sulfonyldiphenol (ISO)

4-hydroperoxycyclophosphamide (ISO)

6-propyl-2-thiouracil (EXP)

acrolein (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol AF (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

chrysene (ISO)

cobalt dichloride (ISO)

dibutyl phthalate (EXP)

ethanol (ISO)

folic acid (ISO)

FR900359 (ISO)

ivermectin (ISO)

lead(0) (ISO)

leflunomide (EXP)

lipopolysaccharide (ISO)

methidathion (ISO)

methimazole (EXP)

methotrexate (ISO)

methylmercury chloride (ISO)

ozone (ISO)

p-toluidine (EXP)

paracetamol (EXP)

perfluorooctanoic acid (ISO)

phenobarbital (EXP,ISO)

Salinomycin (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

tetrachloromethane (EXP)

tetraphene (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

calcium-ion regulated exocytosis (IBA,IMP)

cerebellum development (IEP)

exocytosis (IEA)

fat cell differentiation (IEA,ISO,ISS)

maintenance of synapse structure (ISO)

response to ethanol (IEP)

UV protection (IMP)

zymogen granule exocytosis (IMP)

Cellular Component

cytoplasm (IDA)

endoplasmic reticulum (IBA)

Golgi apparatus (IEA,ISO)

Golgi lumen (IEA,ISO,ISS)

late endosome (IDA,IEA,ISO,ISS)

plasma membrane (IDA)

Molecular Function

calcium ion binding (IBA,IEA,ISO,ISS)

identical protein binding (IPI)

metal ion binding (IEA)

protein binding (IPI,ISO)

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.	A cytosolic splice variant of Cab45 interacts with Munc18b and impacts on amylase secretion by pancreatic acini.	Lam PP, etal., Mol Biol Cell. 2007 Jul;18(7):2473-80. Epub 2007 Apr 18.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	The ethanol response gene Cab45 can modulate the impairment elicited by ethanol and ultraviolet in PC12 cells.	Zhu Y, etal., J Genet Genomics. 2008 Mar;35(3):153-61. doi: 10.1016/S1673-8527(08)60021-1.

Additional References at PubMed

PMID:8609160	PMID:12477932	PMID:19199708	PMID:19487699	PMID:19946888

Genomics

Comparative Map Data

Sdf4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	171,868,591 - 171,885,827 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	171,868,563 - 171,888,884 (+)	Ensembl				GRCr8
mRatBN7.2	5	166,586,581 - 166,606,661 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	166,586,390 - 166,604,521 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	169,290,258 - 169,307,133 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	171,111,682 - 171,128,555 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	171,074,216 - 171,091,087 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	173,425,922 - 173,444,478 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	173,425,907 - 173,444,620 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	176,901,543 - 176,918,497 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	172,836,094 - 172,853,044 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	164,787,377 - 164,804,459 (+)	NCBI		Celera
RGSC_v3.1	5	172,850,036 - 172,863,284 (+)	NCBI
Cytogenetic Map	5	q36	NCBI

SDF4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	1,216,931 - 1,232,001 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	1,216,887 - 1,238,870 (-)	Ensembl			hg38	GRCh38
GRCh37	1	1,152,311 - 1,167,381 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	1,142,151 - 1,157,274 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	1	1,192,234 - 1,207,334	NCBI
Celera	1	1,416,207 - 1,431,366 (+)	NCBI		Celera
Cytogenetic Map	1	p36.33	NCBI
HuRef	1	423,986 - 439,143 (-)	NCBI		HuRef
CHM1_1	1	1,138,762 - 1,153,919 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	645,388 - 660,462 (-)	NCBI		T2T-CHM13v2.0

Sdf4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	156,077,300 - 156,098,067 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	156,077,329 - 156,098,067 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	4	155,992,843 - 156,013,610 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	155,992,872 - 156,013,610 (+)	Ensembl			mm10	GRCm38
MGSCv37	4	155,367,023 - 155,387,719 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	4	154,836,714 - 154,857,410 (+)	NCBI		MGSCv36	mm8
Celera	4	158,256,076 - 158,276,364 (+)	NCBI		Celera
Cytogenetic Map	4	E2	NCBI
cM Map	4	87.66	NCBI

Sdf4
(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_004955486	9,555,364 - 9,567,340 (+)	Ensembl
ChiLan1.0	NW_004955486	9,555,773 - 9,565,310 (+)	NCBI	ChiLan1.0	ChiLan1.0

SDF4
(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	1	226,993,607 - 227,009,286 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	225,690,329 - 225,705,966 (+)	NCBI		NHGRI_mPanPan1
PanPan1.1	1	1,173,925 - 1,190,390 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2

SDF4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	56,407,506 - 56,421,515 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	56,407,807 - 56,421,430 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	56,484,483 - 56,498,492 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	56,610,405 - 56,624,414 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	56,610,409 - 56,624,362 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	56,601,139 - 56,615,150 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	56,493,416 - 56,507,429 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	56,883,417 - 56,897,430 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Sdf4
(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_024405058	27,567,647 - 27,576,851 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936737	1,891,415 - 1,898,904 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936737	1,889,123 - 1,898,303 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SDF4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	63,529,853 - 63,544,944 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	6	63,529,853 - 63,539,979 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	57,999,040 - 58,008,413 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SDF4
(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	20	130,212,962 - 130,228,831 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	130,216,225 - 130,228,962 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666054	34,781,559 - 34,797,557 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sdf4
(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_004624818	8,365,359 - 8,371,386 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624818	8,362,107 - 8,371,565 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Sdf4
(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	1	4,643,920 - 4,660,363 (-)	NCBI		Rrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	193
Count of miRNA genes:	149
Interacting mature miRNAs:	163
Transcripts:	ENSRNOT00000027215
Prediction methods:	Microtar, Miranda, Rnahybrid, 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
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55124766	172190305	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	130249266	172190305	Rat
1354583	Despr3	Despair related QTL3	4.98	0.0002	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	5	132930505	172190305	Rat
61444	Strs2	Sensitivity to stroke QTL 2	4.7		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	5	141212838	172190305	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	131708216	172190305	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	99905133	172190305	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	133789363	172190305	Rat
1331803	Rf32	Renal function QTL 32	2.798		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	134369199	172190305	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	136631198	172190305	Rat
1354631	Swd2	Spike wave discharge measurement QTL 2	3.64	0.0002	brain electrophysiology trait (VT:0010557)	brain total spike-and-wave discharge duration (CMO:0001740)	5	156396728	172190305	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	133081618	172190305	Rat
1581505	Rf54	Renal function QTL 54			kidney physiology trait (VT:0002136)	kidney 20-HETE level (CMO:0001854)	5	133270647	172190305	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	160071170	172129029	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	141764300	172190305	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	133081618	172190305	Rat
1331721	Bp210	Blood pressure QTL 210	3.413		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	148093485	172129029	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	133789363	172190305	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	125969677	172190305	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	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_130412	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006239516	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109193	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109194	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287105	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287106	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC126156	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF405545	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC086996	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218523	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219323	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225623	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231393	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ232476	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000027215 ⟹ ENSRNOP00000027215

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	171,869,119 - 171,885,830 (+)	Ensembl
mRatBN7.2 Ensembl	5	166,586,872 - 166,603,600 (+)	Ensembl
Rnor_6.0 Ensembl	5	173,425,907 - 173,444,620 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000096382 ⟹ ENSRNOP00000089413

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	166,586,390 - 166,604,521 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000097892 ⟹ ENSRNOP00000096524

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	171,868,563 - 171,878,251 (+)	Ensembl
mRatBN7.2 Ensembl	5	166,586,390 - 166,596,025 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000106007 ⟹ ENSRNOP00000095500

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	171,868,563 - 171,888,884 (+)	Ensembl
mRatBN7.2 Ensembl	5	166,586,390 - 166,603,602 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000165274 ⟹ ENSRNOP00000107935

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	171,869,098 - 171,888,884 (+)	Ensembl

RefSeq Acc Id:

NM_130412 ⟹ NP_569096

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,868,875 - 171,885,827 (+)	NCBI
mRatBN7.2	5	166,586,649 - 166,603,602 (+)	NCBI
Rnor_6.0	5	173,425,922 - 173,444,477 (+)	NCBI
Rnor_5.0	5	176,901,543 - 176,918,497 (+)	NCBI
RGSC_v3.4	5	172,836,094 - 172,853,044 (+)	RGD
Celera	5	164,787,377 - 164,804,459 (+)	RGD

Sequence:

show sequence

GGCGGCGGCCTGAGCCGAGTTCCGCGTATGACTTCGCGGGCGCCCAACTGCGCTCCCCAGACCC
GGCGTATCAGAAAGCCGGGGAGTCCCGTGGTCTGGCTGGCGGCAATGACGTCCAGGCAGAGGTC
CCTCTGTGGTCTGGCTGCTCATGGCCTCTGGTTCTTGGGCCTTGTCCTTCTGATGGATGCAACT
GCTAGACCTGCCAACCACTCATTTTCTCGGGAAAGAGCAGCCAACAGGGATGAAAATGAGATCA
TACCCCCAGACCACTTGAATGGGGTGAAGCTGGAGATGGATGGACACCTCAATAAGGACTTCCA
TCAGGAGGTTTTCCTGGGAAAGGACATGGATGGGTTTGATGAGGACTCAGAGCCACGGAGAAGC
AGGAGGAAGCTAATGGTCATCTTTTCCAAGGTAGATGTGAACACTGACCGGAGGATCAGCGCTA
AGGAGATGCAGCACTGGATTATGGAGAAAACAGCAGAGCACTTCCAGGAGGCTGTCAAGGAGAA
CAAACTACACTTCAGGGCTGTGGACCCCGATGGTGATGGCCATGTGTCCTGGGATGAATATAAA
GTGAAGTTTTTGGCAAGCAAAGGCCACAATGAAAGGGAGATTGCCGATGCCATCAAGAATCACG
AGGAGCTCAAAGTGGATGAGGAGACACAGGAAGTCCTTGGGAACCTCAGAGATCGCTGGTATCA
GGCAGACAATCCTCCTGCAGACCTGCTGCTGACTGAGGACGAGTTCCTGTCATTCCTTCACCCT
GAGCACAGCCGGGGCATGCTCAAGTTCATGGTCAAAGAGATCGTTCGGGACTTGGACCAGGATG
GTGATAAGCAGTTGTCTCTGCCTGAGTTCATCTCTCTGCCTGTGGGTACTGTTGAGAACCAGCA
AGGCCAAGACATTGACGACAACTGGGTGAAAGACAGGAAGAAAGAGTTTGAGGAACTGATTGAT
TCTAACCATGATGGGATTGTGACCATGGAGGAGTTGGAGAACTACATGGACCCCATGAATGAAT
ACAATGCCCTCAATGAAGCAAAACAGATGATTGCCATTGCTGATGAGAACCAGAATCACCATCT
GGAGCCTGAGGAGATCCTCAAGTACAGTGAGTTCTTCACGGGCAGCAAGCTGATGGACTATGCC
CGCAATGTGCATGAAGAGTTCTGAGCAGACCCCTCAACTGGGACCAGGTCGCCAGTATGCTGTC
TGCCCCTTCCCACACTTGGAGGAGGCTATGGTCCAGTGAGACCTGTAGATGACTGGGTCCAGAT
CGGGTCTAAAATGCTACCTACCCTGTGTCTGAGGGCTACCATAAGTCCCTCAAAGTGCTGTTCC
AGAACCTTCCTTCTTCTGTTGTGTCCATATGCTCTGGCTTAGCTCCTGCCATGGCATGGCCCAG
GTTCATTAAAGATATGCTCAATAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006239516 ⟹ XP_006239578

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,869,072 - 171,885,827 (+)	NCBI
mRatBN7.2	5	166,586,841 - 166,606,661 (+)	NCBI
Rnor_6.0	5	173,426,129 - 173,444,478 (+)	NCBI
Rnor_5.0	5	176,901,543 - 176,918,497 (+)	NCBI

Sequence:

show sequence

CCGCCCTCTTACCCGGTTGCTTCTTCCGGAACTCACTGTGCTGCGGAGTAACTGATGCTCTGGG
CTCTGTTACCGACTGGCGTTGTGACCTCAACTTGTGGTCCAGCATCTCTGCCTCGGTTTCCTCT
TTGGAGTCCCGTGGTCTGGCTGGCGGCAATGACGTCCAGGCAGAGGTCCCTCTGTGGTCTGGCT
GCTCATGGCCTCTGGTTCTTGGGCCTTGTCCTTCTGATGGATGCAACTGCTAGACCTGCCAACC
ACTCATTTTCTCGGGAAAGAGCAGCCAACAGGGATGAAAATGAGATCATACCCCCAGACCACTT
GAATGGGGTGAAGCTGGAGATGGATGGACACCTCAATAAGGACTTCCATCAGGAGGTTTTCCTG
GGAAAGGACATGGATGGGTTTGATGAGGACTCAGAGCCACGGAGAAGCAGGAGGAAGCTAATGG
TCATCTTTTCCAAGGTAGATGTGAACACTGACCGGAGGATCAGCGCTAAGGAGATGCAGCACTG
GATTATGGAGAAAACAGCAGAGCACTTCCAGGAGGCTGTCAAGGAGAACAAACTACACTTCAGG
GCTGTGGACCCCGATGGTGATGGCCATGTGTCCTGGGATGAATATAAAGTGAAGTTTTTGGCAA
GCAAAGGCCACAATGAAAGGGAGATTGCCGATGCCATCAAGAATCACGAGGAGCTCAAAGTGGA
TGAGGAGACACAGGAAGTCCTTGGGAACCTCAGAGATCGCTGGTATCAGGCAGACAATCCTCCT
GCAGACCTGCTGCTGACTGAGGACGAGTTCCTGTCATTCCTTCACCCTGAGCACAGCCGGGGCA
TGCTCAAGTTCATGGTCAAAGAGATCGTTCGGGACTTGGACCAGGATGGTGATAAGCAGTTGTC
TCTGCCTGAGTTCATCTCTCTGCCTGTGGGTACTGTTGAGAACCAGCAAGGCCAAGACATTGAC
GACAACTGGGTGAAAGACAGGAAGAAAGAGTTTGAGGAACTGATTGATTCTAACCATGATGGGA
TTGTGACCATGGAGGAGTTGGAGAACTACATGGACCCCATGAATGAATACAATGCCCTCAATGA
AGCAAAACAGATGATTGCCATTGCTGATGAGAACCAGAATCACCATCTGGAGCCTGAGGAGATC
CTCAAGTACAGTGAGTTCTTCACGGGCAGCAAGCTGATGGACTATGCCCGCAATGTGCATGAAG
AGTTCTGAGCAGACCCCTCAACTGGGACCAGGTCGCCAGTATGCTGTCTGCCCCTTCCCACACT
TGGAGGAGGCTATGGTCCAGTGAGACCTGTAGATGACTGGGTCCAGATCGGGTCTAAAATGCTA
CCTACCCTGTGTCTGAGGGCTACCATAAGTCCCTCAAAGTGCTGTTCCAGAACCTTCCTTCTTC
TGTTGTGTCCATATGCTCTGGCTTAGCTCCTGCCATGGCATGGCCCAGGTTCATTAAAGATATG
CTCAATAG

hide sequence

RefSeq Acc Id:

XM_039109193 ⟹ XP_038965121

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,869,003 - 171,885,827 (+)	NCBI
mRatBN7.2	5	166,586,839 - 166,606,661 (+)	NCBI

RefSeq Acc Id:

XM_039109194 ⟹ XP_038965122

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,868,823 - 171,885,827 (+)	NCBI
mRatBN7.2	5	166,586,581 - 166,606,661 (+)	NCBI

RefSeq Acc Id:

XM_063287105 ⟹ XP_063143175

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,868,593 - 171,885,827 (+)	NCBI

RefSeq Acc Id:

XM_063287106 ⟹ XP_063143176

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,868,591 - 171,885,827 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_569096	(Get FASTA)	NCBI Sequence Viewer
	XP_006239578	(Get FASTA)	NCBI Sequence Viewer
	XP_038965121	(Get FASTA)	NCBI Sequence Viewer
	XP_038965122	(Get FASTA)	NCBI Sequence Viewer
	XP_063143175	(Get FASTA)	NCBI Sequence Viewer
	XP_063143176	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH86996	(Get FASTA)	NCBI Sequence Viewer
	AAL01370	(Get FASTA)	NCBI Sequence Viewer
	EDL81349	(Get FASTA)	NCBI Sequence Viewer
	EDL81350	(Get FASTA)	NCBI Sequence Viewer
	EDL81351	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000027215
	ENSRNOP00000095500
	ENSRNOP00000107935
GenBank Protein	Q91ZS3	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_569096 ⟸ NM_130412

- UniProtKB:

Q5PQW3 (UniProtKB/Swiss-Prot), Q91ZS3 (UniProtKB/Swiss-Prot), A0A8I6GL63 (UniProtKB/TrEMBL), A6IUU8 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTSRAPNCAPQTRRIRKPGSPVVWLAAMTSRQRSLCGLAAHGLWFLGLVLLMDATARPANHSFS
RERAANRDENEIIPPDHLNGVKLEMDGHLNKDFHQEVFLGKDMDGFDEDSEPRRSRRKLMVIFS
KVDVNTDRRISAKEMQHWIMEKTAEHFQEAVKENKLHFRAVDPDGDGHVSWDEYKVKFLASKGH
NEREIADAIKNHEELKVDEETQEVLGNLRDRWYQADNPPADLLLTEDEFLSFLHPEHSRGMLKF
MVKEIVRDLDQDGDKQLSLPEFISLPVGTVENQQGQDIDDNWVKDRKKEFEELIDSNHDGIVTM
EELENYMDPMNEYNALNEAKQMIAIADENQNHHLEPEEILKYSEFFTGSKLMDYARNVHEEF

hide sequence

RefSeq Acc Id:	XP_006239578 ⟸ XM_006239516
- Peptide Label:	isoform X3
- UniProtKB:	Q91ZS3 (UniProtKB/Swiss-Prot), Q5PQW3 (UniProtKB/Swiss-Prot), A0A0G2JSR9 (UniProtKB/TrEMBL), A6IUV0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLWALLPTGVVTSTCGPASLPRFPLWSPVVWLAAMTSRQRSLCGLAAHGLWFLGLVLLMDATAR PANHSFSRERAANRDENEIIPPDHLNGVKLEMDGHLNKDFHQEVFLGKDMDGFDEDSEPRRSRR KLMVIFSKVDVNTDRRISAKEMQHWIMEKTAEHFQEAVKENKLHFRAVDPDGDGHVSWDEYKVK FLASKGHNEREIADAIKNHEELKVDEETQEVLGNLRDRWYQADNPPADLLLTEDEFLSFLHPEH SRGMLKFMVKEIVRDLDQDGDKQLSLPEFISLPVGTVENQQGQDIDDNWVKDRKKEFEELIDSN HDGIVTMEELENYMDPMNEYNALNEAKQMIAIADENQNHHLEPEEILKYSEFFTGSKLMDYARN VHEEF hide sequence

Ensembl Acc Id:

ENSRNOP00000027215 ⟸ ENSRNOT00000027215

RefSeq Acc Id:	XP_038965122 ⟸ XM_039109194
- Peptide Label:	isoform X2
- UniProtKB:	Q91ZS3 (UniProtKB/Swiss-Prot), Q5PQW3 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:	XP_038965121 ⟸ XM_039109193
- Peptide Label:	isoform X1
- UniProtKB:	Q91ZS3 (UniProtKB/Swiss-Prot), Q5PQW3 (UniProtKB/Swiss-Prot)

Ensembl Acc Id:

ENSRNOP00000089413 ⟸ ENSRNOT00000096382

Ensembl Acc Id:

ENSRNOP00000096524 ⟸ ENSRNOT00000097892

Ensembl Acc Id:

ENSRNOP00000095500 ⟸ ENSRNOT00000106007

RefSeq Acc Id:	XP_063143176 ⟸ XM_063287106
- Peptide Label:	isoform X5
- UniProtKB:	Q91ZS3 (UniProtKB/Swiss-Prot), Q5PQW3 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:	XP_063143175 ⟸ XM_063287105
- Peptide Label:	isoform X4
- UniProtKB:	Q91ZS3 (UniProtKB/Swiss-Prot), Q5PQW3 (UniProtKB/Swiss-Prot)

Ensembl Acc Id:

ENSRNOP00000107935 ⟸ ENSRNOT00000165274

Protein Domains

EF-hand

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q91ZS3-F1-model_v2	AlphaFold	Q91ZS3	1-361	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694341

Promoter ID:

EPDNEW_R4865

Type:

initiation region

Name:

Sdf4_1

Description:

stromal cell derived factor 4

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	5	173,425,915 - 173,425,975	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621521	AgrOrtholog
BioCyc Gene	G2FUF-38879	BioCyc
Ensembl Genes	ENSRNOG00000019981	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000027215	ENTREZGENE
	ENSRNOT00000106007	ENTREZGENE
	ENSRNOT00000165274	ENTREZGENE
Gene3D-CATH	EF-hand	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7192272	IMAGE-MGC_LOAD
InterPro	CAB45	UniProtKB/Swiss-Prot
	EF-hand-dom_pair	UniProtKB/Swiss-Prot
	EF_Hand_1_Ca_BS	UniProtKB/Swiss-Prot
	EF_hand_dom	UniProtKB/Swiss-Prot
KEGG Report	rno:155173	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93237	IMAGE-MGC_LOAD
NCBI Gene	155173	ENTREZGENE
PANTHER	45 KDA CALCIUM-BINDING PROTEIN	UniProtKB/Swiss-Prot
	RETICULOCALBIN	UniProtKB/Swiss-Prot
Pfam	EF-hand_5	UniProtKB/Swiss-Prot
	EF-hand_7	UniProtKB/Swiss-Prot
PhenoGen	Sdf4	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/Swiss-Prot
	EF_HAND_2	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000019981	RatGTEx
SMART	EFh	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF47473	UniProtKB/Swiss-Prot
UniProt	A0A0G2JSR9	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6ALY7_RAT	UniProtKB/TrEMBL
	A0A8I6GL63	ENTREZGENE, UniProtKB/TrEMBL
	A0ABK0LZD9_RAT	UniProtKB/TrEMBL
	A6IUU8	ENTREZGENE, UniProtKB/TrEMBL
	A6IUU9_RAT	UniProtKB/TrEMBL
	A6IUV0	ENTREZGENE, UniProtKB/TrEMBL
	CAB45_RAT	UniProtKB/Swiss-Prot
	Q5PQW3	ENTREZGENE
	Q91ZS3	ENTREZGENE
UniProt Secondary	Q5PQW3	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-01-20	Sdf4	stromal cell derived factor 4			Symbol and Name status set to approved	1299863	APPROVED
2002-08-07	Sdf4	stromal cell derived factor 4			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 Disease Annotations - CTD