Afp (alpha-fetoprotein) - Rat Genome Database

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Gene: Afp (alpha-fetoprotein) Rattus norvegicus
Analyze
Symbol: Afp
Name: alpha-fetoprotein
RGD ID: 2065
Description: Predicted to enable small molecule binding activity. Involved in several processes, including cellular response to retinoic acid; liver regeneration; and response to tetrachloromethane. Located in extracellular space. Biomarker of hepatitis and hepatocellular carcinoma. Human ortholog(s) of this gene implicated in hepatitis C. Orthologous to human AFP (alpha fetoprotein); PARTICIPATES IN forkhead class A signaling pathway; INTERACTS WITH (+)-schisandrin B; (+)-taxifolin; (S)-naringenin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-1-fetoprotein; alpha-fetoglobulin; chloride intracellular channel 6
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Is Marker For: QTLs:   Scl11  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,857,584 - 17,875,645 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1417,857,584 - 17,875,649 (-)EnsemblGRCr8
mRatBN7.21417,573,412 - 17,591,476 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,573,412 - 17,591,480 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1417,559,718 - 17,577,743 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,878,645 - 18,896,663 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,577,705 - 17,595,633 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01419,141,755 - 19,159,919 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1419,141,755 - 19,159,923 (-)Ensemblrn6Rnor6.0
Rnor_5.01419,049,096 - 19,067,260 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41419,092,563 - 19,110,728 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1416,939,827 - 16,957,879 (-)NCBICelera
RGSC_v3.11419,092,562 - 19,110,728 (-)NCBI
RH 3.4 Map14214.49RGD
Cytogenetic Map14p22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(+)-taxifolin  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-naringenin  (EXP)
1,1-dichloroethene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
1H-1,2,4-triazole  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2'-Dihydroxy-4-methoxybenzophenone  (EXP)
2,3,4,5-Tetrachloro-4'-biphenylol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-diaminotoluene  (ISO)
2,4-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-amino-2-deoxy-D-galactopyranose  (EXP)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-nitropropane  (EXP)
2-sec-butylphenol  (EXP)
3'-hydroxyflavanone  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,5,6-trichloro-2-pyridinol  (ISO)
3,5,6-trichloropyridine-2-one  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
4'-hydroxychalcone  (EXP)
4'-hydroxyflavanone  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxychalcone  (EXP)
4-nonylphenol  (EXP)
4-octylphenol  (EXP)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
5-hydroxytryptophan  (ISO)
7,12-dimethyltetraphene  (EXP)
7-hydroxyflavanone  (EXP)
acetic acid  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (EXP)
allyl alcohol  (EXP,ISO)
alogliptin  (EXP)
alpha-Zearalanol  (EXP)
amiodarone  (ISO)
ammonium chloride  (EXP)
apigenin  (EXP)
arotinoid acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
Azaspiracid  (ISO)
azoxystrobin  (EXP)
baicalein  (EXP)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzyl parahydroxybenzoate  (EXP)
benzylpenicillin  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (ISO)
beta-Zearalanol  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromochloroacetic acid  (ISO)
brucine  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
carfilzomib  (EXP)
chalcone  (EXP)
CHIR 99021  (ISO)
chlorogenic acid  (ISO)
chloroprene  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (EXP,ISO)
choline  (EXP,ISO)
Chorionic gonadotropin  (ISO)
chrysin  (EXP)
citral  (EXP)
clofibrate  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (EXP)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corosolic acid  (ISO)
cortisol  (ISO)
coumestrol  (EXP)
Cuprizon  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (ISO)
deoxynivalenol  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dienestrol  (EXP)
diethyl maleate  (ISO)
diethyl phthalate  (EXP)
diethylstilbestrol  (EXP,ISO)
Dimethyl phthalate  (EXP)
dimethylarsinic acid  (ISO)
diphenyl diselenide  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
ebselen  (EXP)
equol  (EXP)
estra-1,3,5(10)-trien-3-ol  (EXP)
estriol  (EXP,ISO)
estrone  (EXP)
ethanol  (EXP)
fisetin  (EXP)
flavanone  (EXP)
flavonoids  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
fosinopril  (ISO)
furan  (EXP,ISO)
gemcitabine  (ISO)
geranial  (EXP)
glucose  (ISO)
glyphosate  (EXP)
hesperidin  (EXP)
hexestrol  (EXP)
hypochlorous acid  (ISO)
imidacloprid  (EXP)
isoliquiritigenin  (EXP)
isoniazide  (ISO)
kaempferol  (EXP,ISO)
ketamine  (EXP)
L-ascorbic acid  (ISO)
L-ascorbic acid 2-phosphate  (ISO)
L-citrulline  (ISO)
L-ethionine  (EXP)
L-methionine  (EXP,ISO)
levofloxacin  (EXP)
lipopolysaccharide  (ISO)
losartan  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
manganese(II) chloride  (EXP)
masoprocol  (EXP)
mercury dibromide  (ISO)
mestranol  (EXP)
methimazole  (ISO)
methylarsonic acid  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzone  (EXP)
myricetin  (EXP)
N,N'-diphenyl-1,4-phenylenediamine  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
niclosamide  (EXP)
nitrofen  (EXP)
Nivalenol  (ISO)
ochratoxin A  (ISO)
okadaic acid  (ISO)
ozone  (ISO)
panaxydol  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
perindopril  (ISO)
phenobarbital  (EXP,ISO)
phenol  (ISO)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
phloretin  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
pluronic P-123  (EXP)
Poloxamer  (EXP)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
quercetin  (EXP,ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
saccharin  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium nitrate  (ISO)
sorafenib  (ISO)
streptozocin  (ISO)
succimer  (ISO)
tamoxifen  (ISO)
tannic acid  (ISO)
tartrazine  (EXP)
tetrachloromethane  (EXP,ISO)
thiabendazole  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
thymoquinone  (EXP)
titanium dioxide  (ISO)
trans-chalcone  (EXP)
tributylstannane  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
urea  (ISO)
valproic acid  (EXP,ISO)
XAV939  (ISO)
zinc dichloride  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO)
extracellular region  (IEA)
extracellular space  (IDA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The transcription control region of the rat alpha-fetoprotein gene. DNA sequence and homology studies. Buzard G and Locker J, DNA Seq 1990;1(1):33-48.
2. Applicability of BALAD score in prognostication of hepatitis B-related hepatocellular carcinoma. Chan SL, etal., J Gastroenterol Hepatol. 2015 Oct;30(10):1529-35. doi: 10.1111/jgh.13005.
3. Hormonal modulation of alpha-fetoprotein gene expression in newborn rat livers. Chiu JF, etal., Nucleic Acids Res. 1981 Dec 21;9(24):6917-33. doi: 10.1093/nar/9.24.6917.
4. Serum biomarkers in metastatic renal cell carcinoma. Dexeus FH, etal., Urology. 1991 Jul;38(1):6-10.
5. Bone marrow derived-mesenchymal stem cells downregulate IL17A dependent IL6/STAT3 signaling pathway in CCl4-induced rat liver fibrosis. Farouk S, etal., PLoS One. 2018 Oct 22;13(10):e0206130. doi: 10.1371/journal.pone.0206130. eCollection 2018.
6. Alpha-fetoprotein, the major fetal serum protein, is not essential for embryonic development but is required for female fertility. Gabant P, etal., Proc Natl Acad Sci U S A 2002 Oct 1;99(20):12865-70. Epub 2002 Sep 24.
7. 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.
8. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
9. Dexamethasone inhibits alpha-fetoprotein gene transcription in neonatal rat liver and isolated nuclei. Huang DP, etal., Nucleic Acids Res. 1985 Jun 11;13(11):3873-90. doi: 10.1093/nar/13.11.3873.
10. Sequence homology between RNAs encoding rat alpha-fetoprotein and rat serum albumin. Jagodzinski LL, etal., Proc Natl Acad Sci U S A 1981 Jun;78(6):3521-5.
11. Regulation of alpha-fetoprotein expression by Nkx2.8. Kajiyama Y, etal., Mol Cell Biol 2002 Sep;22(17):6122-30.
12. The Clinical Significance of Alpha-Fetoprotein mRNAs in Patients with Hepatocellular Carcinoma. Kobayashi S, etal., Gastrointest Tumors. 2017 Mar;3(3-4):141-152. doi: 10.1159/000455955. Epub 2017 Feb 8.
13. Prognostic analysis of Japanese men with metastatic germ cell tumors showing favorable response to bleomycin, etoposide and cisplatin as first-line chemotherapy. Kumano M, etal., Hinyokika Kiyo. 2007 Dec;53(12):851-6.
14. 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
15. Elevated serum alpha fetoprotein levels promote pathological progression of hepatocellular carcinoma. Li P, etal., World J Gastroenterol. 2011 Nov 7;17(41):4563-71. doi: 10.3748/wjg.v17.i41.4563.
16. Alpha-fetoprotein is dynamically expressed in rat pancreas during development. Liu L, etal., Dev Growth Differ. 2007 Oct;49(8):669-81.
17. Expression of AFP and Rev-Erb A/Rev-Erb B and N-CoR in fetal rat liver, liver injury and liver regeneration. Meier V, etal., Comp Hepatol. 2006 Jul 5;5:2.
18. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
19. Expression of liver-specific functions and secretion of a hepatocyte growth factor by a newly established rat hepatoma cell line growing in a chemically-defined serum-free medium. Miyazaki M, etal., Res Exp Med (Berl). 1991;191(5):297-307.
20. Hepatocyte nuclear factor-6 stimulates transcription of the alpha-fetoprotein gene and synergizes with the retinoic-acid-receptor-related orphan receptor alpha-4. Nacer-Cherif H, etal., Biochem J 2003 Feb 1;369(Pt 3):583-91.
21. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. Inhibitory effect of acyclic retinoid (polyprenoic acid) on the secretion of alpha-fetoprotein in CCl4-treated rats. Okuno M, etal., J Nutr Sci Vitaminol (Tokyo). 1990 Oct;36(5):437-46.
23. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
24. Assessment of 54 biomarkers for biopsy-detectable prostate cancer. Parekh DJ, etal., Cancer Epidemiol Biomarkers Prev. 2007 Oct;16(10):1966-72.
25. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
26. Pharmacokinetics of diclofenac in rats intoxicated with CCL4, and in the regenerating liver. Reyes-Gordillo K, etal., Biopharm Drug Dispos. 2007 Nov;28(8):415-22.
27. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
28. Comprehensive gene review and curation RGD comprehensive gene curation
29. Synthesis of alpha-fetoprotein and some other serum proteins in testicular tumors. Sakashita S, etal., Invest Urol. 1977 Jul;15(1):2-4.
30. Altered expression of alpha-fetoprotein and albumin in early embryonic rat liver upon heat shock. Srinivas UK and Revathi CJ, Biochem Mol Biol Int. 1994 May;33(1):21-8.
31. Gene-based anchoring of the rat genetic linkage and cytogenetic maps: new regional localizations, orientation of the linkage groups, and insights into mammalian chromosome evolution. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
32. Elevation of serum alpha-fetoprotein and proliferation of oval cells in the livers of LEC rats. Takahashi H, etal., Jpn J Cancer Res. 1988 Jul;79(7):821-7. doi: 10.1111/j.1349-7006.1988.tb00043.x.
33. Direct-acting antiviral-based triple therapy on alpha-fetoprotein level in chronic hepatitis C patients. Takayama K, etal., World J Gastroenterol. 2015 Apr 21;21(15):4696-706. doi: 10.3748/wjg.v21.i15.4696.
34. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
35. Cellular analysis of alpha-fetoprotein gene activation during carbon tetrachloride and D-galactosamine-induced acute liver injury in rats. Tournier I, etal., Lab Invest. 1988 Nov;59(5):657-65.
36. Surgery in infants and children with testicular and paratesticular tumours: a single centre experience over a 25-year-period. Trobs RB, etal., Klin Padiatr. 2007 May-Jun;219(3):146-51.
37. Rat alpha 1-fetoprotein messenger RNA: 5'-end sequence and glucocorticoid-suppressed liver transcription in an improved nuclear run-off assay. Turcotte B, etal., Nucleic Acids Res 1985 Apr 11;13(7):2387-98.
38. 9-cis-retinoic acid is more effective than all-trans-retinoic acid in upregulating expression of the alpha-fetoprotein gene. Wan YJ, etal., J Mol Endocrinol. 1995 Feb;14(1):101-8. doi: 10.1677/jme.0.0140101.
39. On the mechanism of bile acid inhibition of rat sterol 12alpha-hydroxylase gene (CYP8B1) transcription: roles of alpha-fetoprotein transcription factor and hepatocyte nuclear factor 4alpha. Yang Y, etal., Biochim Biophys Acta 2002 Jun 13;1583(1):63-73.
40. Prolactin promotes hepatocellular carcinoma through Janus kinase 2. Yeh YT, etal., World J Surg. 2012 May;36(5):1128-35. doi: 10.1007/s00268-012-1505-4.
41. Development of multimarker panel for early detection of endometrial cancer. High diagnostic power of prolactin. Yurkovetsky Z, etal., Gynecol Oncol. 2007 Oct;107(1):58-65. Epub 2007 Jul 19.
42. Garlic Oil Suppressed Nitrosodiethylamine-Induced Hepatocarcinoma in Rats by Inhibiting PI3K-AKT-NF-κB Pathway. Zhang CL, etal., Int J Biol Sci. 2015 Apr 25;11(6):643-51. doi: 10.7150/ijbs.10785. eCollection 2015.
Additional References at PubMed
PMID:67170   PMID:1376990   PMID:2434929   PMID:2442163   PMID:2456965   PMID:2462901   PMID:6157681   PMID:6157690   PMID:8607965   PMID:9420335   PMID:12477932   PMID:16893898  
PMID:17879097   PMID:19360917   PMID:21734804   PMID:26210615   PMID:31381236  


Genomics

Comparative Map Data
Afp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,857,584 - 17,875,645 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1417,857,584 - 17,875,649 (-)EnsemblGRCr8
mRatBN7.21417,573,412 - 17,591,476 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,573,412 - 17,591,480 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1417,559,718 - 17,577,743 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,878,645 - 18,896,663 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,577,705 - 17,595,633 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01419,141,755 - 19,159,919 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1419,141,755 - 19,159,923 (-)Ensemblrn6Rnor6.0
Rnor_5.01419,049,096 - 19,067,260 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41419,092,563 - 19,110,728 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1416,939,827 - 16,957,879 (-)NCBICelera
RGSC_v3.11419,092,562 - 19,110,728 (-)NCBI
RH 3.4 Map14214.49RGD
Cytogenetic Map14p22NCBI
AFP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38473,436,221 - 73,456,174 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl473,431,138 - 73,456,174 (+)Ensemblhg38GRCh38
GRCh37474,301,938 - 74,321,891 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36474,520,797 - 74,540,356 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34474,666,967 - 74,686,527NCBI
Celera471,661,745 - 71,681,240 (+)NCBICelera
Cytogenetic Map4q13.3ENTREZGENE
HuRef470,113,467 - 70,132,962 (+)NCBIHuRef
CHM1_1474,338,122 - 74,357,615 (+)NCBICHM1_1
T2T-CHM13v2.0476,779,943 - 76,799,830 (+)NCBIT2T-CHM13v2.0
Afp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39590,638,573 - 90,656,766 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl590,638,596 - 90,656,766 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38590,490,714 - 90,508,907 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl590,490,737 - 90,508,907 (+)Ensemblmm10GRCm38
MGSCv37590,919,740 - 90,937,933 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36591,565,937 - 91,584,106 (+)NCBIMGSCv36mm8
Celera588,652,007 - 88,670,199 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.77NCBI
AFP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2356,607,582 - 56,626,380 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1456,796,622 - 56,815,436 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0450,739,197 - 50,758,459 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1456,571,519 - 56,590,391 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl456,571,519 - 56,590,391 (-)EnsemblpanPan2panpan1.1
AFP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11362,182,876 - 62,203,414 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1362,053,814 - 62,294,709 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1361,852,491 - 61,873,033 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01362,992,405 - 63,012,932 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1362,992,405 - 63,012,932 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11362,603,973 - 62,624,508 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01362,097,020 - 62,117,581 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01363,232,901 - 63,253,687 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Afp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528513,606,058 - 13,625,722 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365982,058,117 - 2,077,728 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365982,058,474 - 2,077,711 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AFP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl869,677,690 - 69,698,864 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1869,677,690 - 69,698,864 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2873,777,748 - 73,798,926 (+)NCBISscrofa10.2Sscrofa10.2susScr3
AFP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1721,904,225 - 21,924,105 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl721,905,154 - 21,924,092 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666084873,280 - 892,444 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Afp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473534,072,192 - 34,092,604 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473534,072,257 - 34,092,540 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Afp
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1113,934,395 - 3,952,251 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Afp
49 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:153
Count of miRNA genes:125
Interacting mature miRNAs:135
Transcripts:ENSRNOT00000003879
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14395787821572472Rat
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14395787818558812Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141133490630674469Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141133471628389666Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14117877928Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141513759431238250Rat

Markers in Region
D14Mit2  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81417,877,742 - 17,877,928 (+)Marker Load Pipeline
mRatBN7.21417,593,575 - 17,593,761 (+)MAPPERmRatBN7.2
Rnor_6.01419,161,705 - 19,161,893NCBIRnor6.0
RH 3.4 Map14226.99RGD
RH 3.4 Map14226.99UniSTS
SHRSP x BN Map146.9UniSTS
SHRSP x BN Map146.9RGD
FHH x ACI Map1419.55RGD
Cytogenetic Map14p21UniSTS
D14Wox8  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81417,877,762 - 17,877,905 (+)Marker Load Pipeline
RH 3.4 Map14224.4UniSTS
RH 3.4 Map14224.4RGD
RH 2.0 Map14212.6RGD
Cytogenetic Map14p21UniSTS
D14Wox9  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81417,876,955 - 17,877,416 (+)Marker Load Pipeline
Celera1416,959,190 - 16,959,641UniSTS
RH 3.4 Map14218.8UniSTS
RH 3.4 Map14218.8RGD
Cytogenetic Map14p21UniSTS
PMC275467P5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,575,797 - 17,576,738 (+)MAPPERmRatBN7.2
Rnor_6.01419,144,140 - 19,145,080NCBIRnor6.0
Rnor_5.01419,051,481 - 19,052,421UniSTSRnor5.0
RGSC_v3.41419,095,046 - 19,095,986UniSTSRGSC3.4
Celera1416,942,206 - 16,943,146UniSTS
Cytogenetic Map14p21UniSTS
BI285802  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,573,445 - 17,574,505 (+)MAPPERmRatBN7.2
Rnor_6.01419,141,789 - 19,142,847NCBIRnor6.0
Rnor_5.01419,049,130 - 19,050,188UniSTSRnor5.0
RGSC_v3.41419,092,597 - 19,093,753UniSTSRGSC3.4
Celera1416,939,861 - 16,940,913UniSTS
RH 3.4 Map14224.4UniSTS
Cytogenetic Map14p21UniSTS
RH94533  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,573,429 - 17,573,535 (+)MAPPERmRatBN7.2
Rnor_6.01419,141,773 - 19,141,878NCBIRnor6.0
Rnor_5.01419,049,114 - 19,049,219UniSTSRnor5.0
RGSC_v3.41419,092,581 - 19,092,686UniSTSRGSC3.4
Celera1416,939,845 - 16,939,950UniSTS
RH 3.4 Map14214.49UniSTS
Cytogenetic Map14p21UniSTS
UniSTS:275850  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,574,567 - 17,575,931 (+)MAPPERmRatBN7.2
Rnor_6.01419,142,910 - 19,144,273NCBIRnor6.0
Rnor_5.01419,050,251 - 19,051,614UniSTSRnor5.0
RGSC_v3.41419,093,816 - 19,095,179UniSTSRGSC3.4
Celera1416,940,976 - 16,942,339UniSTS
Cytogenetic Map14p21UniSTS
Afp  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,574,493 - 17,575,848 (+)MAPPERmRatBN7.2
Rnor_6.01419,142,836 - 19,144,190NCBIRnor6.0
Rnor_5.01419,050,177 - 19,051,531UniSTSRnor5.0
Celera1416,940,902 - 16,942,256UniSTS
Cytogenetic Map14p21UniSTS


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
3 7 26 98 82 80 59 21 59 5 174 61 2 80 44 87 21 2 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB053574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW141770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC097344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY309525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY310963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY317147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J00694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J02816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J02838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M18351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X05093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000003879   ⟹   ENSRNOP00000003879
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1417,857,584 - 17,875,649 (-)Ensembl
mRatBN7.2 Ensembl1417,573,412 - 17,591,480 (-)Ensembl
Rnor_6.0 Ensembl1419,141,755 - 19,159,923 (-)Ensembl
RefSeq Acc Id: NM_012493   ⟹   NP_036625
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81417,857,584 - 17,875,645 (-)NCBI
mRatBN7.21417,573,412 - 17,591,476 (-)NCBI
Rnor_6.01419,141,755 - 19,159,919 (-)NCBI
Rnor_5.01419,049,096 - 19,067,260 (-)NCBI
RGSC_v3.41419,092,563 - 19,110,728 (-)RGD
Celera1416,939,827 - 16,957,879 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091614   ⟹   XP_038947542
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81417,857,584 - 17,865,067 (-)NCBI
mRatBN7.21417,573,412 - 17,580,901 (-)NCBI
RefSeq Acc Id: NP_036625   ⟸   NM_012493
- Peptide Label: precursor
- UniProtKB: G3V6D0 (UniProtKB/TrEMBL),   A6KKF8 (UniProtKB/TrEMBL),   Q4QR90 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003879   ⟸   ENSRNOT00000003879
RefSeq Acc Id: XP_038947542   ⟸   XM_039091614
- Peptide Label: isoform X1
- UniProtKB: A6KKF9 (UniProtKB/TrEMBL)
Protein Domains
Albumin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P02773-F1-model_v2 AlphaFold P02773 1-611 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2065 AgrOrtholog
BioCyc Gene G2FUF-16187 BioCyc
Ensembl Genes ENSRNOG00000002889 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000003879 ENTREZGENE
Gene3D-CATH 1.10.246.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7459964 IMAGE-MGC_LOAD
InterPro ALB/AFP/VDB UniProtKB/Swiss-Prot
  Serum_albumin-like UniProtKB/Swiss-Prot
  Serum_albumin/AFP/Afamin UniProtKB/Swiss-Prot
  Serum_albumin_CS UniProtKB/Swiss-Prot
  Serum_albumin_N UniProtKB/Swiss-Prot
MGC_CLONE MGC:114356 IMAGE-MGC_LOAD
NCBI Gene 24177 ENTREZGENE
PANTHER ALPHA-FETOPROTEIN UniProtKB/Swiss-Prot
  PTHR11385 UniProtKB/Swiss-Prot
Pfam Serum_albumin UniProtKB/Swiss-Prot
PhenoGen Afp PhenoGen
PIRSF Serum_albumin_subgroup UniProtKB/Swiss-Prot
PRINTS AFETOPROTEIN UniProtKB/Swiss-Prot
  SERUMALBUMIN UniProtKB/Swiss-Prot
PROSITE ALBUMIN_1 UniProtKB/Swiss-Prot
  ALBUMIN_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002889 RatGTEx
SMART ALBUMIN UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48552 UniProtKB/Swiss-Prot
TIGR TC216588
UniProt A6KKF8 ENTREZGENE, UniProtKB/TrEMBL
  A6KKF9 ENTREZGENE, UniProtKB/TrEMBL
  FETA_RAT UniProtKB/Swiss-Prot
  G3V6D0 ENTREZGENE, UniProtKB/TrEMBL
  P02773 ENTREZGENE
  Q4QR90 ENTREZGENE, UniProtKB/TrEMBL
  Q63033_RAT UniProtKB/TrEMBL
UniProt Secondary Q63032 UniProtKB/Swiss-Prot
  Q63205 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Afp  alpha-fetoprotein      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression synthesized by the fetal liver and yolk sac 61489
gene_function binds copper, nickel, fatty acids, bilirubin, and serum albumin  
gene_process may play a role in the maintenance of osmotic pressure