AFP (alpha fetoprotein) - Rat Genome Database

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Gene: AFP (alpha fetoprotein) Canis lupus familiaris
Analyze
Symbol: AFP
Name: alpha fetoprotein
RGD ID: 12393880
Description: ENCODES a protein that exhibits lipid binding (inferred); metal ion binding (inferred); INVOLVED IN animal organ regeneration (ortholog); cellular response to retinoic acid (ortholog); liver development (ortholog); PARTICIPATES IN forkhead class A signaling pathway; ASSOCIATED WITH Alpha-Fetoprotein Deficiency (ortholog); Alpha-Fetoprotein, Hereditary Persistence of (ortholog); Breast Neoplasms (ortholog); FOUND IN extracellular space (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: alpha-1-fetoprotein; alpha-fetoglobulin; alpha-fetoprotein
RGD Orthologs
Human
Mouse
Rat
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1361,852,491 - 61,873,033 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01362,992,405 - 63,012,932 (+)NCBIROS_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_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:17846232   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1361,852,491 - 61,873,033 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01362,992,405 - 63,012,932 (+)NCBIROS_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_1.0
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 (+)EnsemblGRCh38hg38GRCh38
GRCh37474,301,938 - 74,321,891 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36474,520,797 - 74,540,356 (+)NCBINCBI36Build 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 Ensembl
GRCm38590,490,714 - 90,508,907 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl590,490,737 - 90,508,907 (+)EnsemblGRCm38mm10GRCm38
MGSCv37590,919,740 - 90,937,933 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36591,565,937 - 91,584,106 (+)NCBIMGSCv36mm8
Celera588,652,007 - 88,670,199 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.77NCBI
Afp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,857,584 - 17,875,645 (-)NCBIGRCr8
mRatBN7.21417,573,412 - 17,591,476 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,573,412 - 17,591,480 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1417,559,718 - 17,577,743 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,878,645 - 18,896,663 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,577,705 - 17,595,633 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01419,141,755 - 19,159,919 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1419,141,755 - 19,159,923 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01419,049,096 - 19,067,260 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41419,092,563 - 19,110,728 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11419,092,562 - 19,110,728 (-)NCBI
Celera1416,939,827 - 16,957,879 (-)NCBICelera
RH 3.4 Map14214.49RGD
Cytogenetic Map14p22NCBI
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 (-)Ensemblpanpan1.1panPan2
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473534,072,257 - 34,092,540 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in AFP
396 total Variants

Expression


Sequence


RefSeq Acc Id: ENSCAFT00845010532   ⟹   ENSCAFP00845008195
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1362,992,405 - 63,012,932 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845010577   ⟹   ENSCAFP00845008237
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1362,992,405 - 63,011,389 (+)Ensembl
RefSeq Acc Id: NM_001003027   ⟹   NP_001003027
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11362,182,876 - 62,203,414 (+)NCBI
Dog10K_Boxer_Tasha1361,852,491 - 61,873,033 (+)NCBI
ROS_Cfam_1.01362,992,405 - 63,012,932 (+)NCBI
UMICH_Zoey_3.11362,603,973 - 62,624,508 (+)NCBI
UNSW_CanFamBas_1.01362,097,020 - 62,117,581 (+)NCBI
UU_Cfam_GSD_1.01363,232,901 - 63,253,687 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001003027   ⟸   NM_001003027
- Peptide Label: precursor
- UniProtKB: Q8MJU5 (UniProtKB/Swiss-Prot),   A0A8C0P9W0 (UniProtKB/TrEMBL),   A0A8I3MT20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00845008237   ⟸   ENSCAFT00845010577
RefSeq Acc Id: ENSCAFP00845008195   ⟸   ENSCAFT00845010532
Protein Domains
Albumin

Promoters
RGD ID:13685681
Promoter ID:EPDNEW_C3751
Type:single initiation site
Name:AFP_1
Description:alpha fetoprotein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11362,182,829 - 62,182,889EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000003020 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00000053620 UniProtKB/TrEMBL
  ENSCAFG00030019553 UniProtKB/TrEMBL
  ENSCAFG00030019863 UniProtKB/TrEMBL
  ENSCAFG00040007154 UniProtKB/TrEMBL
  ENSCAFG00040007397 UniProtKB/TrEMBL
  ENSCAFG00845005947 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000004843.5 UniProtKB/TrEMBL
  ENSCAFT00000004849.4 UniProtKB/TrEMBL
  ENSCAFT00000036330.5 UniProtKB/TrEMBL
  ENSCAFT00000076096.2 UniProtKB/TrEMBL
  ENSCAFT00000080490.2 UniProtKB/TrEMBL
  ENSCAFT00000091909.2 UniProtKB/TrEMBL
  ENSCAFT00000107297.1 UniProtKB/TrEMBL
  ENSCAFT00000108325.1 UniProtKB/TrEMBL
  ENSCAFT00030035893.1 UniProtKB/TrEMBL
  ENSCAFT00030036239.1 UniProtKB/TrEMBL
  ENSCAFT00030036280.1 UniProtKB/TrEMBL
  ENSCAFT00030036513.1 UniProtKB/TrEMBL
  ENSCAFT00030036577.1 UniProtKB/TrEMBL
  ENSCAFT00040013450.1 UniProtKB/TrEMBL
  ENSCAFT00040013468.1 UniProtKB/TrEMBL
  ENSCAFT00040013557.1 UniProtKB/TrEMBL
  ENSCAFT00040013785.1 UniProtKB/TrEMBL
  ENSCAFT00040013886.1 UniProtKB/TrEMBL
  ENSCAFT00845010532 ENTREZGENE
  ENSCAFT00845010532.1 UniProtKB/TrEMBL
  ENSCAFT00845010577.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.246.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ALB/AFP/VDB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serum_albumin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serum_albumin/AFP/Afamin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serum_albumin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Serum_albumin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report cfa:403551 UniProtKB/Swiss-Prot
NCBI Gene AFP ENTREZGENE
PANTHER ALBUMIN UniProtKB/TrEMBL
  ALPHA-FETOPROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11385 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Serum_albumin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PIRSF Serum_albumin_subgroup UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS AFETOPROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SERUMALBUMIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ALBUMIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ALBUMIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ALBUMIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48552 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8C0NSI4_CANLF UniProtKB/TrEMBL
  A0A8C0P084_CANLF UniProtKB/TrEMBL
  A0A8C0P9W0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QE33_CANLF UniProtKB/TrEMBL
  A0A8C0QN02_CANLF UniProtKB/TrEMBL
  A0A8C0RZQ0_CANLF UniProtKB/TrEMBL
  A0A8I3MT20 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N1E6_CANLF UniProtKB/TrEMBL
  A0A8P0N604_CANLF UniProtKB/TrEMBL
  A0A8P0THQ0_CANLF UniProtKB/TrEMBL
  FETA_CANLF UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0A8P0P664 UniProtKB/TrEMBL
  A0A8P0TKM1 UniProtKB/TrEMBL
VGNC ID VGNC:37692 ENTREZGENE