S100a4 (S100 calcium-binding protein A4) - Rat Genome Database

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Gene: S100a4 (S100 calcium-binding protein A4) Rattus norvegicus
Analyze
Symbol: S100a4
Name: S100 calcium-binding protein A4
RGD ID: 3245
Description: Enables actin binding activity; calcium ion binding activity; and calcium-dependent protein binding activity. Predicted to be involved in positive regulation of canonical NF-kappaB signal transduction. Predicted to be located in cytosol; extracellular region; and nucleoplasm. Predicted to be active in extracellular space; nucleus; and perinuclear region of cytoplasm. Orthologous to human S100A4 (S100 calcium binding protein A4); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 18A2; 42A; calvasculin; CAPL; metastasin; MTS1; nerve growth factor-induced protein 42A; P9K; P9ka; PEL98; placental calcium-binding protein; protein 9 Ka homologous to calcium-binding protein; protein S100-A4; RNP9KA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82178,388,529 - 178,390,838 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2178,388,526 - 178,390,837 (+)EnsemblGRCr8
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)Ensemblrn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1,4-dithiothreitol  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-nitrotoluene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (EXP,ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
andrographolide  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
apocynin  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
atrazine  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
celastrol  (ISO)
chloroprene  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
cycloheximide  (ISO)
cyclosporin A  (EXP,ISO)
cytarabine  (ISO)
D-penicillamine  (EXP)
DDE  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Diosbulbin B  (ISO)
dioxygen  (ISO)
diuron  (EXP,ISO)
dopamine  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
erianin  (ISO)
ethanol  (ISO)
ethylenediaminetetraacetic acid  (ISO)
ethylparaben  (ISO)
Evodiamine  (ISO)
fenoldopam  (EXP)
fenpyroximate  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
furan  (EXP)
geldanamycin  (ISO)
gentamycin  (EXP)
glycidol  (EXP)
glycidyl methacrylate  (ISO)
graphene oxide  (ISO)
GSK-J4  (ISO)
homocysteine  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
iohexol  (ISO)
iopamidol  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
ivermectin  (ISO)
ketamine  (EXP,ISO)
L-1,4-dithiothreitol  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
losartan  (ISO)
Malonoben  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl carbamate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
methylseleninic acid  (ISO)
Miglitol  (EXP,ISO)
milrinone  (EXP)
mitomycin C  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
niclosamide  (ISO)
Nutlin-3  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
Pachymic acid  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
pentetic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
pravastatin  (EXP,ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
scopolamine  (EXP)
senecionine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sirolimus  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium tungstate  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
xanthohumol  (ISO)
zaragozic acid A  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
extracellular region  (IEA)
extracellular space  (IBA,IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
perinuclear region of cytoplasm  (IBA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Calcium-ion binding by the potential calcium-ion-binding protein, p9Ka. Barraclough R, etal., Biochem Biophys Res Commun. 1990 Jun 15;169(2):660-6.
2. Molecular cloning and sequence of the gene for p9Ka. A cultured myoepithelial cell protein with strong homology to S-100, a calcium-binding protein. Barraclough R, etal., J Mol Biol 1987 Nov 5;198(1):13-20.
3. Transformation of normal rat kidney cells by v-K-ras enhances expression of transin 2 and an S-100-related calcium-binding protein. De Vouge MW and Mukherjee BB, Oncogene 1992 Jan;7(1):109-19.
4. Protein interactions between S100A4 (p9Ka) and other cellular proteins identified using in vitro methods. Flynn AM, etal., Biochem Soc Trans. 1996 Aug;24(3):341S.
5. 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.
6. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
7. Gene expression profile of rat adipose tissue at the onset of high-fat-diet obesity. Li J, etal., Am J Physiol Endocrinol Metab 2002 Jun;282(6):E1334-41.
8. Nerve growth factor induces the genes for two proteins related to a family of calcium-binding proteins in PC12 cells. Masiakowski P and Shooter EM, Proc Natl Acad Sci U S A 1988 Feb;85(4):1277-81.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. An integrated rat genetic map: analysis of linkage conservation with the mouse and human maps. Remmers EF, etal., Transplant Proc 1999 May;31(3):1549-54.
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Metastasis-associated S100A4 (Mts1) protein is expressed in subpopulations of sensory and autonomic neurons and in Schwann cells of the adult rat. Sandelin M, etal., J Comp Neurol 2004 May 24;473(2):233-43.
15. Calcium, troponin, calmodulin, S100 proteins: from myocardial basics to new therapeutic strategies. Schaub MC and Heizmann CW, Biochem Biophys Res Commun. 2008 Apr 25;369(1):247-64. Epub 2007 Oct 25.
16. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17. The C-terminal region of S100A4 is important for its metastasis-inducing properties. Zhang S, etal., Oncogene 2005 Jun 23;24(27):4401-11.
Additional References at PubMed
PMID:9242709   PMID:10869553   PMID:11914069   PMID:12118070   PMID:15033494   PMID:15665453   PMID:16265672   PMID:17223348   PMID:19056867   PMID:20421509   PMID:21975553   PMID:22483112  
PMID:22561747   PMID:22658674   PMID:22664934   PMID:23222508   PMID:23352991   PMID:23376485   PMID:23469180   PMID:23580065   PMID:25253987   PMID:26499072   PMID:26721462   PMID:27068509  
PMID:28235243   PMID:30083275   PMID:37683711   PMID:38360265  


Genomics

Comparative Map Data
S100a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82178,388,529 - 178,390,838 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2178,388,526 - 178,390,837 (+)EnsemblGRCr8
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)Ensemblrn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
S100A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381153,543,621 - 153,545,806 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1153,543,613 - 153,550,136 (-)Ensemblhg38GRCh38
GRCh371153,516,097 - 153,518,282 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361151,782,719 - 151,784,906 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341150,329,170 - 150,331,355NCBI
Celera1126,587,355 - 126,589,542 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1124,879,355 - 124,881,542 (-)NCBIHuRef
CHM1_11154,912,044 - 154,914,231 (-)NCBICHM1_1
T2T-CHM13v2.01152,680,877 - 152,683,062 (-)NCBIT2T-CHM13v2.0
S100a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39390,511,077 - 90,513,349 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl390,511,078 - 90,513,352 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38390,603,770 - 90,606,045 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl390,603,771 - 90,606,045 (+)Ensemblmm10GRCm38
MGSCv37390,407,692 - 90,409,967 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36390,689,697 - 90,691,968 (+)NCBIMGSCv36mm8
Celera390,645,174 - 90,647,449 (+)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.27NCBI
S100a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955545192,116 - 195,394 (-)Ensembl
ChiLan1.0NW_004955545192,236 - 194,468 (-)NCBIChiLan1.0ChiLan1.0
S100A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2196,288,008 - 96,290,345 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1196,023,251 - 96,025,528 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01128,898,765 - 128,901,042 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11132,527,846 - 132,530,125 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1132,527,846 - 132,530,122 (-)EnsemblpanPan2panpan1.1
S100A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1743,494,007 - 43,496,021 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha742,986,972 - 42,988,993 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0743,443,738 - 43,445,759 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl743,440,733 - 43,445,796 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1743,146,014 - 43,148,039 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0743,199,907 - 43,201,928 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0743,483,524 - 43,485,545 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
S100a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505824,325,369 - 24,327,658 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365803,355,699 - 3,358,242 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365803,355,751 - 3,358,030 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
S100A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl496,088,201 - 96,091,156 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1496,088,102 - 96,091,160 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24104,908,141 - 104,911,151 (-)NCBISscrofa10.2Sscrofa10.2susScr3
S100A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12010,258,142 - 10,260,390 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2010,258,070 - 10,260,871 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660389,649,628 - 9,651,911 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
S100a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248853,586,909 - 3,592,914 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248853,589,323 - 3,591,463 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
S100a4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1363,011,177 - 63,013,621 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in S100a4
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:38
Interacting mature miRNAs:38
Transcripts:ENSRNOT00000015958
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2163997722225110681Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2169358774214358774Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2170656145239614549Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2149957381221199885Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845370229470703Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283465462229820014Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)220695736231474293Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2138595962205135428Rat
1581576Pur7Proteinuria QTL 70.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)280396178220931218Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2124537199209621565Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2145807215220931416Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)278269809208420281Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2122597372215234002Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2154723085199723085Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)280396178220931218Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2145807215190807215Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2154723085199723085Rat
10043139Iddm55Insulin dependent diabetes mellitus QTL 553.10.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2150313808195313808Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2154723085199723085Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2159440891205135267Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2154723085199723085Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2170652929215652929Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2159440891220931218Rat
4889834Pur24Proteinuria QTL 245.80.014urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)2171994826205135428Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2143565208188565208Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2154723085199723085Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2139067258192287892Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2159440760195313808Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2144882354205135428Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845182205135428Rat
1357991Ael2Aortic elastin QTL 24.20.000071aorta elastin amount (VT:0003905)aortic elastin2169227906214227906Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283400752223709938Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
1578671Bmd10Bone mineral density QTL 105.4femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)2175931416220931416Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2139067258184067258Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660251712708Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)280396034220931416Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278269809205135428Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2159440760228950743Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2143344967251712708Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2143746578205135428Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2143344967251712708Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2114384617215381366Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150096616195096616Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2145306936212705578Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2113746222205135428Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2147287892192287892Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2114384617215381366Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660223841096Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2117415288205135428Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150096616195096616Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283465462225110681Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)247856345205135428Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2175008837220008837Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2165453811210453811Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2163253030208253030Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979184731399Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166372086229820014Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)276328396209350714Rat

Markers in Region
D2Mit13  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82178,389,917 - 178,390,126 (+)Marker Load Pipeline
mRatBN7.22176,092,339 - 176,092,546 (+)MAPPERmRatBN7.2
mRatBN7.2156,794,419 - 56,794,475 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,667 - 189,998,875NCBIRnor6.0
Rnor_5.02209,432,762 - 209,432,968UniSTSRnor5.0
RGSC_v3.42182,886,459 - 182,886,669UniSTSRGSC3.4
RGSC_v3.42182,886,458 - 182,886,669RGDRGSC3.4
Celera2170,027,065 - 170,027,271UniSTS
RGSC_v3.12182,836,564 - 182,836,775RGD
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
D2Wox23  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82178,388,670 - 178,388,765 (+)Marker Load Pipeline
mRatBN7.22176,091,092 - 176,091,187 (+)MAPPERmRatBN7.2
Rnor_6.02189,997,420 - 189,997,514NCBIRnor6.0
Rnor_5.02209,431,515 - 209,431,609UniSTSRnor5.0
RGSC_v3.42182,885,212 - 182,885,306UniSTSRGSC3.4
Celera2170,025,820 - 170,025,912UniSTS
RGSC_v3.12182,835,317 - 182,835,412RGD
Cytogenetic Map2q34UniSTS
D2Arb37  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82178,389,891 - 178,390,171 (+)Marker Load Pipeline
mRatBN7.22176,092,313 - 176,092,591 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,641 - 189,998,920NCBIRnor6.0
Rnor_5.02209,432,736 - 209,433,013UniSTSRnor5.0
RGSC_v3.42182,886,433 - 182,886,714UniSTSRGSC3.4
RGSC_v3.42182,886,432 - 182,886,714RGDRGSC3.4
Celera2170,027,039 - 170,027,316UniSTS
RGSC_v3.12182,836,538 - 182,836,820RGD
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
RH132651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,089,314 - 176,089,508 (+)MAPPERmRatBN7.2
Rnor_6.02189,995,642 - 189,995,835NCBIRnor6.0
Rnor_5.02209,429,737 - 209,429,930UniSTSRnor5.0
RGSC_v3.42182,883,434 - 182,883,627UniSTSRGSC3.4
Celera2170,024,042 - 170,024,235UniSTS
RH 3.4 Map21165.4UniSTS
Cytogenetic Map2q34UniSTS
RH94503  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,093,136 - 176,093,239 (+)MAPPERmRatBN7.2
Rnor_6.02189,999,466 - 189,999,568NCBIRnor6.0
Rnor_5.02209,433,559 - 209,433,661UniSTSRnor5.0
RGSC_v3.42182,887,260 - 182,887,362UniSTSRGSC3.4
Celera2170,027,862 - 170,027,964UniSTS
RH 3.4 Map21164.6UniSTS
Cytogenetic Map2q34UniSTS


Expression

RNA-SEQ Expression

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 67 154 91 90 59 92 59 6 356 192 11 133 81 92 31 10 10

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006232592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221508 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J03628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U94663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X64023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000015958   ⟹   ENSRNOP00000015958
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2178,388,526 - 178,390,837 (+)Ensembl
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)Ensembl
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)Ensembl
RefSeq Acc Id: NM_012618   ⟹   NP_036750
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82178,388,529 - 178,390,837 (+)NCBI
mRatBN7.22176,090,951 - 176,093,257 (+)NCBI
Rnor_6.02189,997,278 - 189,999,586 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
RGSC_v3.42182,885,070 - 182,887,380 (+)RGD
Celera2170,025,678 - 170,027,982 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232592   ⟹   XP_006232654
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82178,389,362 - 178,390,838 (+)NCBI
mRatBN7.22176,091,780 - 176,093,258 (+)NCBI
Rnor_6.02189,998,123 - 189,999,587 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_036750 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232654 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA42098 (Get FASTA)   NCBI Sequence Viewer  
  CAA30014 (Get FASTA)   NCBI Sequence Viewer  
  EDM00542 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015958
  ENSRNOP00000015958.1
GenBank Protein P05942 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_036750   ⟸   NM_012618
- UniProtKB: P05942 (UniProtKB/Swiss-Prot),   A6J6P7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232654   ⟸   XM_006232592
- Peptide Label: isoform X1
- UniProtKB: P05942 (UniProtKB/Swiss-Prot),   A6J6P7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015958   ⟸   ENSRNOT00000015958
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P05942-F1-model_v2 AlphaFold P05942 1-101 view protein structure

Transcriptome

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

Promoters
RGD ID:13691508
Promoter ID:EPDNEW_R2033
Type:single initiation site
Name:S100a4_1
Description:S100 calcium-binding protein A4
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_6.02189,997,278 - 189,997,338EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3245 AgrOrtholog
BioCyc Gene G2FUF-52328 BioCyc
Ensembl Genes ENSRNOG00000011821 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015958 ENTREZGENE
  ENSRNOT00000015958.5 UniProtKB/Swiss-Prot
Gene3D-CATH EF-hand UniProtKB/Swiss-Prot
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot
  EF_hand_dom UniProtKB/Swiss-Prot
  S-100_dom UniProtKB/Swiss-Prot
  S100/CaBP-9k_CS UniProtKB/Swiss-Prot
  S100_Ca-bd_sub UniProtKB/Swiss-Prot
KEGG Report rno:24615 UniProtKB/Swiss-Prot
NCBI Gene S100a4 ENTREZGENE
PANTHER PTHR11639:SF51 UniProtKB/Swiss-Prot
  S100 CALCIUM-BINDING PROTEIN UniProtKB/Swiss-Prot
Pfam S_100 UniProtKB/Swiss-Prot
PhenoGen S100a4 PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot
  EF_HAND_2 UniProtKB/Swiss-Prot
  S100_CABP UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000011821 RatGTEx
SMART EFh UniProtKB/Swiss-Prot
  S_100 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot
TIGR TC228997
UniProt A6J6P7 ENTREZGENE, UniProtKB/TrEMBL
  P05942 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 S100a4  S100 calcium-binding protein A4      Symbol and Name status set to approved 70586 APPROVED
2001-04-19 P9ka  Protein 9 Ka homologous to calcium-binding protein      Symbol and name withdrawn 61478 WITHDRAWN
2001-04-19 S100a4  S100 calcium-binding protein A4      Symbol and name updated to reflect Human and Mouse nomenclature 61478 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease has metastasis-inducing capabilities  
gene_process involved in the regulation of cell cycle progression, modulating intercellular adhesion, and invasive and metastatic properties of cancer cells  
gene_regulation expression increases at the onset of high-fat-diet obesity 625747
gene_regulation expression is induced by nerve growth factor (NGF) 729699