Amfr (autocrine motility factor receptor) - Rat Genome Database

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Gene: Amfr (autocrine motility factor receptor) Rattus norvegicus
Analyze
Symbol: Amfr
Name: autocrine motility factor receptor
RGD ID: 1311551
Description: Predicted to enable several functions, including BAT3 complex binding activity; ubiquitin-specific protease binding activity; and ubiquitin-ubiquitin ligase activity. Involved in learning or memory. Located in dendrite; growth cone; and neuronal cell body. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 89. Orthologous to human AMFR (autocrine motility factor receptor); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH bisphenol A; gentamycin; indole-3-methanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: autocrine motility factor receptor, E3 ubiquitin protein ligase; E3 ubiquitin-protein ligase AMFR; LOC361367
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81911,002,451 - 11,038,182 (+)NCBIGRCr8
mRatBN7.21910,996,705 - 11,032,260 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,996,099 - 11,032,247 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01911,473,538 - 11,509,500 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1911,473,541 - 11,508,102 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01911,447,902 - 11,483,881 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41911,434,553 - 11,467,592 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11911,417,443 - 11,471,813 (+)NCBI
Celera1910,881,564 - 10,916,023 (+)NCBICelera
Cytogenetic Map19p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Expression of the AMF/neuroleukin receptor in developing and adult brain cerebellum. Leclerc N, etal., J Neurosci Res. 2000 Jun 1;60(5):602-12.
4. A link between maze learning and hippocampal expression of neuroleukin and its receptor gp78. Luo Y, etal., J Neurochem. 2002 Jan;80(2):354-61.
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:1649192   PMID:11724934   PMID:12477932   PMID:12847084   PMID:16168377   PMID:16275660   PMID:17043353   PMID:17157811   PMID:17310145   PMID:17681147   PMID:17872946   PMID:19103148  
PMID:19223579   PMID:19946888   PMID:20819951   PMID:21636303   PMID:22728137   PMID:23246001   PMID:23382219   PMID:23942235   PMID:24424410   PMID:24810856   PMID:26459914   PMID:28528366  
PMID:31073040  


Genomics

Comparative Map Data
Amfr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81911,002,451 - 11,038,182 (+)NCBIGRCr8
mRatBN7.21910,996,705 - 11,032,260 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,996,099 - 11,032,247 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01911,473,538 - 11,509,500 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1911,473,541 - 11,508,102 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01911,447,902 - 11,483,881 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41911,434,553 - 11,467,592 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11911,417,443 - 11,471,813 (+)NCBI
Celera1910,881,564 - 10,916,023 (+)NCBICelera
Cytogenetic Map19p12NCBI
AMFR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381656,361,452 - 56,425,545 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1656,361,452 - 56,425,545 (-)EnsemblGRCh38hg38GRCh38
GRCh371656,395,364 - 56,459,457 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361654,952,865 - 55,016,945 (-)NCBINCBI36Build 36hg18NCBI36
Build 341654,952,864 - 55,016,804NCBI
Celera1640,892,193 - 40,957,463 (-)NCBICelera
Cytogenetic Map16q13NCBI
HuRef1642,266,003 - 42,329,606 (-)NCBIHuRef
CHM1_11657,802,735 - 57,866,433 (-)NCBICHM1_1
T2T-CHM13v2.01662,156,498 - 62,220,616 (-)NCBIT2T-CHM13v2.0
Amfr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39894,698,216 - 94,739,301 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl894,698,216 - 94,739,470 (-)EnsemblGRCm39 Ensembl
GRCm38893,971,588 - 94,012,640 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl893,971,588 - 94,012,842 (-)EnsemblGRCm38mm10GRCm38
MGSCv37896,495,488 - 96,536,540 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36896,861,055 - 96,901,971 (-)NCBIMGSCv36mm8
Celera898,301,641 - 98,335,290 (-)NCBICelera
Cytogenetic Map8C5NCBI
cM Map845.96NCBI
Amfr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543314,172,808 - 14,212,110 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543314,172,871 - 14,205,484 (-)NCBIChiLan1.0ChiLan1.0
AMFR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21865,843,225 - 65,907,259 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11671,762,368 - 71,826,081 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01636,647,792 - 36,711,782 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11655,780,633 - 55,843,738 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1655,780,633 - 55,843,744 (-)Ensemblpanpan1.1panPan2
AMFR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1259,766,910 - 59,803,292 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl259,767,324 - 59,801,883 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha256,392,079 - 56,436,972 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0260,303,688 - 60,348,369 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl260,303,780 - 60,348,358 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1257,133,765 - 57,178,394 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0258,142,842 - 58,187,484 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0259,035,835 - 59,080,467 (+)NCBIUU_Cfam_GSD_1.0
Amfr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934950,861,780 - 50,896,114 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364758,692,844 - 8,727,385 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364758,692,969 - 8,727,252 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AMFR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl629,366,936 - 29,413,697 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1629,366,812 - 29,417,800 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2626,739,205 - 26,753,523 (+)NCBISscrofa10.2Sscrofa10.2susScr3
AMFR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1542,276,672 - 42,334,508 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl542,275,584 - 42,334,207 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604734,030,673 - 34,088,632 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Amfr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624757136,283 - 179,138 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624757136,289 - 179,743 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Amfr
128 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:94
Interacting mature miRNAs:100
Transcripts:ENSRNOT00000026340
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032318023069265Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat

Markers in Region
RH70754  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21911,032,009 - 11,032,151 (+)MAPPERmRatBN7.2
Rnor_6.01911,509,255 - 11,509,396NCBIRnor6.0
Rnor_5.01911,483,632 - 11,483,773UniSTSRnor5.0
RGSC_v3.41911,468,137 - 11,468,278UniSTSRGSC3.4
Celera1910,915,587 - 10,915,728UniSTS
Cytogenetic Map19p12UniSTS
RH130371  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21910,993,508 - 10,993,697 (+)MAPPERmRatBN7.2
Rnor_6.01911,470,305 - 11,470,493NCBIRnor6.0
Rnor_5.01911,444,738 - 11,444,926UniSTSRnor5.0
RGSC_v3.41911,431,359 - 11,431,547UniSTSRGSC3.4
Celera1910,878,063 - 10,878,251UniSTS
RH 3.4 Map19112.3UniSTS
Cytogenetic Map19p12UniSTS
RH134309  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21911,031,675 - 11,031,858 (+)MAPPERmRatBN7.2
Rnor_6.01911,508,921 - 11,509,103NCBIRnor6.0
Rnor_5.01911,483,298 - 11,483,480UniSTSRnor5.0
RGSC_v3.41911,467,803 - 11,467,985UniSTSRGSC3.4
Celera1910,915,253 - 10,915,435UniSTS
RH 3.4 Map19110.7UniSTS
Cytogenetic Map19p12UniSTS
BF386544  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21911,019,743 - 11,019,895 (+)MAPPERmRatBN7.2
Rnor_6.01911,496,990 - 11,497,141NCBIRnor6.0
Rnor_5.01911,471,367 - 11,471,518UniSTSRnor5.0
RGSC_v3.41911,455,872 - 11,456,023UniSTSRGSC3.4
Celera1910,903,304 - 10,903,455UniSTS
RH 3.4 Map19110.7UniSTS
Cytogenetic Map19p12UniSTS
Amfr  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21911,031,032 - 11,031,815 (+)MAPPERmRatBN7.2
Rnor_6.01911,508,278 - 11,509,060NCBIRnor6.0
Rnor_5.01911,482,655 - 11,483,437UniSTSRnor5.0
RGSC_v3.41911,467,160 - 11,467,942UniSTSRGSC3.4
Celera1910,914,610 - 10,915,392UniSTS
Cytogenetic Map19p12UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000082066   ⟹   ENSRNOP00000072893
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1910,996,099 - 11,032,247 (+)Ensembl
Rnor_6.0 Ensembl1911,473,541 - 11,508,102 (+)Ensembl
RefSeq Acc Id: NM_001427144   ⟹   NP_001414073
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81911,002,451 - 11,038,182 (+)NCBI
RefSeq Acc Id: XM_063278104   ⟹   XP_063134174
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81911,003,382 - 11,038,059 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001414073 (Get FASTA)   NCBI Sequence Viewer  
  XP_063134174 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87358 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000072893.2
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000072893   ⟸   ENSRNOT00000082066
RefSeq Acc Id: NP_001414073   ⟸   NM_001427144
RefSeq Acc Id: XP_063134174   ⟸   XM_063278104
- Peptide Label: isoform X1
Protein Domains
CUE   RING-type

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:1311551 AgrOrtholog
BioCyc Gene G2FUF-6467 BioCyc
Ensembl Genes ENSRNOG00000055446 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082066.2 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  DNA helicase RuvA subunit, C-terminal domain UniProtKB/TrEMBL
InterPro AMFR_Ube2g2-bd UniProtKB/TrEMBL
  CUE UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
NCBI Gene 361367 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE AMFR UniProtKB/TrEMBL
  E3 UBIQUITIN-PROTEIN LIGASE RNF8 UniProtKB/TrEMBL
Pfam CUE UniProtKB/TrEMBL
  G2BR UniProtKB/TrEMBL
  zf-RING_2 UniProtKB/TrEMBL
PhenoGen Amfr PhenoGen
PROSITE CUE UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000055446 RatGTEx
SMART CUE UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
UniProt A0A0G2K437_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Amfr  autocrine motility factor receptor  Amfr  autocrine motility factor receptor, E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-13 Amfr  autocrine motility factor receptor, E3 ubiquitin protein ligase  Amfr  autocrine motility factor receptor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Amfr  autocrine motility factor receptor   Amfr_predicted  autocrine motility factor receptor (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Amfr_predicted  autocrine motility factor receptor (predicted)      Symbol and Name status set to approved 70820 APPROVED