AFM (afamin) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: AFM (afamin) Chlorocebus sabaeus
Analyze
Symbol: AFM
Name: afamin
RGD ID: 18772347
Description: ENCODES a protein that exhibits metal ion binding (inferred); vitamin E binding (inferred); INVOLVED IN protein stabilization (inferred); protein transport within extracellular region (inferred); vitamin transport (inferred); ASSOCIATED WITH acute kidney failure (ortholog); Drug-Related Side Effects and Adverse Reactions (ortholog); Experimental Liver Cirrhosis (ortholog); FOUND IN extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1721,950,222 - 21,972,612 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl721,950,705 - 21,972,739 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666084824,453 - 846,386 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
AFM
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1721,950,222 - 21,972,612 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl721,950,705 - 21,972,739 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666084824,453 - 846,386 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
AFM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38473,481,745 - 73,504,001 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl473,481,745 - 73,504,001 (+)EnsemblGRCh38hg38GRCh38
GRCh37474,347,462 - 74,369,718 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36474,566,326 - 74,588,582 (+)NCBINCBI36Build 36hg18NCBI36
Build 34474,712,496 - 74,734,753NCBI
Celera471,707,194 - 71,729,436 (+)NCBICelera
Cytogenetic Map4q13.3NCBI
HuRef470,158,855 - 70,181,099 (+)NCBIHuRef
CHM1_1474,383,462 - 74,405,708 (+)NCBICHM1_1
T2T-CHM13v2.0476,825,372 - 76,847,610 (+)NCBIT2T-CHM13v2.0
Afm
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39590,666,808 - 90,701,403 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl590,666,791 - 90,701,402 (+)EnsemblGRCm39 Ensembl
GRCm38590,518,949 - 90,553,544 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl590,518,932 - 90,553,543 (+)EnsemblGRCm38mm10GRCm38
MGSCv37590,947,975 - 90,982,570 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36591,594,163 - 91,641,425 (+)NCBIMGSCv36mm8
Celera588,680,306 - 88,704,975 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.78NCBI
Afm
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81417,815,194 - 17,848,042 (-)NCBIGRCr8
mRatBN7.21417,531,022 - 17,563,868 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1417,531,024 - 17,563,870 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1417,525,337 - 17,550,140 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01418,844,268 - 18,869,067 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01417,536,413 - 17,568,193 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01419,078,678 - 19,132,212 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1419,078,680 - 19,132,208 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01419,035,336 - 19,039,510 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01418,988,809 - 19,008,149 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41419,049,664 - 19,082,977 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11419,049,663 - 19,082,977 (-)NCBI
Celera1416,899,392 - 16,930,240 (-)NCBICelera
Cytogenetic Map14p22NCBI
AFM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2356,559,516 - 56,583,201 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1456,748,574 - 56,771,840 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0450,691,556 - 50,714,140 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1456,523,712 - 56,545,919 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl456,519,389 - 56,545,974 (-)Ensemblpanpan1.1panPan2
AFM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11362,212,230 - 62,235,136 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1362,053,814 - 62,294,709 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1361,881,887 - 61,904,769 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01363,021,767 - 63,044,655 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1363,021,855 - 63,044,642 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11362,633,366 - 62,656,263 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01362,126,432 - 62,149,372 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01363,262,556 - 63,285,453 (+)NCBIUU_Cfam_GSD_1.0
AFM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl869,706,896 - 69,728,255 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1869,706,823 - 69,728,269 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2873,806,942 - 73,828,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Afm
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473533,945,107 - 34,015,900 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium
Low 13
Below cutoff 2 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000002820   ⟹   ENSCSAP00000001117
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl721,950,705 - 21,972,739 (+)Ensembl
RefSeq Acc Id: XM_037994704   ⟹   XP_037850632
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666084824,453 - 846,386 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037850632 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000001117.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000001117   ⟸   ENSCSAT00000002820
RefSeq Acc Id: XP_037850632   ⟸   XM_037994704
- UniProtKB: A0A0D9QXM8 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000004792 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000002820.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.246.10 UniProtKB/TrEMBL
InterPro ALB/AFP/VDB UniProtKB/TrEMBL
  Serum_albumin-like UniProtKB/TrEMBL
  Serum_albumin/AFP/Afamin UniProtKB/TrEMBL
  Serum_albumin_CS UniProtKB/TrEMBL
  Serum_albumin_N UniProtKB/TrEMBL
KEGG Report csab:103235781 UniProtKB/TrEMBL
NCBI Gene AFM ENTREZGENE
PANTHER AFAMIN UniProtKB/TrEMBL
  PTHR11385 UniProtKB/TrEMBL
Pfam Serum_albumin UniProtKB/TrEMBL
PIRSF Serum_albumin_subgroup UniProtKB/TrEMBL
PRINTS AFETOPROTEIN UniProtKB/TrEMBL
  SERUMALBUMIN UniProtKB/TrEMBL
PROSITE ALBUMIN_1 UniProtKB/TrEMBL
  ALBUMIN_2 UniProtKB/TrEMBL
SMART ALBUMIN UniProtKB/TrEMBL
Superfamily-SCOP SSF48552 UniProtKB/TrEMBL
UniProt A0A0D9QXM8 ENTREZGENE, UniProtKB/TrEMBL