Fem1a (fem-1 homolog A) - Rat Genome Database

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Gene: Fem1a (fem-1 homolog A) Rattus norvegicus
Analyze
Symbol: Fem1a
Name: fem-1 homolog A
RGD ID: 1561112
Description: Predicted to enable EP4 subtype prostaglandin E2 receptor binding activity and ubiquitin-like ligase-substrate adaptor activity. Predicted to be involved in regulation of inflammatory response; regulation of ubiquitin-protein transferase activity; and ubiquitin-dependent protein catabolic process via the C-end degron rule pathway. Predicted to act upstream of or within negative regulation of MAP kinase activity. Predicted to be part of Cul2-RING ubiquitin ligase complex. Predicted to be active in mitochondrion. Orthologous to human FEM1A (fem-1 homolog A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: fem-1 homolog a (C. elegans); FEM1-alpha; feminization 1 homolog a; feminization 1 homolog a (C. elegans); feminization of XX and XO animals 1A; LOC316131; MGC114562; protein fem-1 homolog A; similar to sex-determination protein homolog Fem1a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,178,857 - 1,181,063 (+)NCBIGRCr8
mRatBN7.291,091,695 - 1,093,901 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,090,527 - 1,100,628 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,537,395 - 1,539,601 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,885,362 - 6,887,568 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,842,433 - 5,844,639 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,798,934 - 10,801,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,798,946 - 10,801,140 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,790,602 - 9,792,808 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,416,121 - 7,418,327 (-)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:16424369   PMID:18270204  


Genomics

Comparative Map Data
Fem1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,178,857 - 1,181,063 (+)NCBIGRCr8
mRatBN7.291,091,695 - 1,093,901 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,090,527 - 1,100,628 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,537,395 - 1,539,601 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,885,362 - 6,887,568 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,842,433 - 5,844,639 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,798,934 - 10,801,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,798,946 - 10,801,140 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,790,602 - 9,792,808 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,416,121 - 7,418,327 (-)NCBICelera
Cytogenetic Map9q11NCBI
FEM1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,791,734 - 4,801,273 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,791,734 - 4,801,273 (+)EnsemblGRCh38hg38GRCh38
GRCh37194,791,746 - 4,801,285 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,742,728 - 4,746,571 (+)NCBINCBI36Build 36hg18NCBI36
Build 34194,742,769 - 4,746,567NCBI
Celera194,729,623 - 4,733,477 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef194,553,385 - 4,557,238 (+)NCBIHuRef
CHM1_1194,791,252 - 4,795,104 (+)NCBICHM1_1
T2T-CHM13v2.0194,777,196 - 4,786,749 (+)NCBIT2T-CHM13v2.0
Fem1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,563,793 - 56,570,608 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,563,810 - 56,570,610 (+)EnsemblGRCm39 Ensembl
GRCm381756,256,793 - 56,263,608 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,256,810 - 56,263,610 (+)EnsemblGRCm38mm10GRCm38
MGSCv371756,396,216 - 56,403,031 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,890,531 - 55,894,784 (+)NCBIMGSCv36mm8
Celera1760,359,868 - 60,366,683 (+)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.24NCBI
Fem1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554954,215,284 - 4,217,230 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554954,214,250 - 4,217,313 (-)NCBIChiLan1.0ChiLan1.0
LOC100973655
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21418,217,371 - 18,247,982 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1139,321,794 - 9,350,556 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v021468,156 - 495,596 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,763,448 - 4,767,394 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl194,763,674 - 4,765,683 (+)Ensemblpanpan1.1panPan2
FEM1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12054,971,654 - 54,975,236 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2054,973,083 - 54,975,104 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2054,696,306 - 54,699,889 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02055,626,045 - 55,629,628 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2055,627,467 - 55,629,489 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12054,687,398 - 54,690,980 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,167,987 - 55,171,571 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,365,967 - 55,369,558 (-)NCBIUU_Cfam_GSD_1.0
Fem1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118215,023,045 - 215,026,253 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,808,679 - 2,810,616 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,808,561 - 2,811,738 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FEM1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,042,989 - 74,044,983 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1274,041,391 - 74,045,123 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103233730
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.164,503,012 - 4,506,873 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl64,503,146 - 4,505,155 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023668252660 - 4,563 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fem1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248284,990,299 - 4,992,287 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248284,989,025 - 4,992,730 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fem1a
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:53
Count of miRNA genes:47
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000072771
Prediction methods: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
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000072771   ⟹   ENSRNOP00000067295
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl910,798,946 - 10,801,140 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099590   ⟹   ENSRNOP00000091315
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,090,527 - 1,100,628 (+)Ensembl
RefSeq Acc Id: NM_001025706   ⟹   NP_001020877
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,178,857 - 1,181,063 (+)NCBI
mRatBN7.291,091,695 - 1,093,901 (+)NCBI
Rnor_6.0910,798,934 - 10,801,140 (-)NCBI
Rnor_5.099,790,602 - 9,792,808 (-)NCBI
Celera97,416,121 - 7,418,327 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001020877 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97490 (Get FASTA)   NCBI Sequence Viewer  
  EDL83649 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000091315.1
  ENSRNOP00055021222
  ENSRNOP00060027311
  ENSRNOP00065017393
GenBank Protein Q4V890 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001020877   ⟸   NM_001025706
- UniProtKB: Q4V890 (UniProtKB/Swiss-Prot),   A6KQZ1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000067295   ⟸   ENSRNOT00000072771
Ensembl Acc Id: ENSRNOP00000091315   ⟸   ENSRNOT00000099590

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4V890-F1-model_v2 AlphaFold Q4V890 1-654 view protein structure

Transcriptome

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

Promoters
RGD ID:13696464
Promoter ID:EPDNEW_R6989
Type:multiple initiation site
Name:Fem1a_1
Description:fem-1 homolog A
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_6.0910,801,157 - 10,801,217EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561112 AgrOrtholog
BioCyc Gene G2FUF-28539 BioCyc
Ensembl Genes ENSRNOG00000050646 Ensembl
  ENSRNOG00000066151 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055015251 UniProtKB/Swiss-Prot
  ENSRNOG00060019318 UniProtKB/Swiss-Prot
  ENSRNOG00065013637 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000099590.1 UniProtKB/Swiss-Prot
  ENSRNOT00055026060 UniProtKB/Swiss-Prot
  ENSRNOT00060033378 UniProtKB/Swiss-Prot
  ENSRNOT00065022434 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot
  1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetratricopeptide repeat domain UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7460827 IMAGE-MGC_LOAD
InterPro Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CRL2_E3_Ligase_Fem-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:316131 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114562 IMAGE-MGC_LOAD
NCBI Gene 316131 ENTREZGENE
PANTHER ANKYRIN REPEAT CONTAINING UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ANKYRIN REPEAT DOMAIN 16 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ank UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ank_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fem1a PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000050646 RatGTEx
  ENSRNOG00000066151 RatGTEx
  ENSRNOG00055015251 RatGTEx
  ENSRNOG00060019318 RatGTEx
  ENSRNOG00065013637 RatGTEx
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Ankyrin repeat UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  SSF48452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6KQZ1 ENTREZGENE, UniProtKB/TrEMBL
  FEM1A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-17 Fem1a  fem-1 homolog A  Fem1a  feminization of XX and XO animals 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-05-03 Fem1a  feminization of XX and XO animals 1A  Fem1a  feminization of XX and XO animals 1 A  Name changed 629549 APPROVED
2022-05-03 Fem1a  feminization of XX and XO animals 1 A  Fem1a  fem-1 homolog A  Name changed 629549 APPROVED
2016-03-29 Fem1a  fem-1 homolog A  Fem1a  fem-1 homolog a (C. elegans)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-02-04 Fem1a  fem-1 homolog a (C. elegans)  Fem1a  feminization 1 homolog a (C. elegans)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Fem1a  feminization 1 homolog a (C. elegans)  LOC316131  similar to sex-determination protein homolog Fem1a  Symbol and Name updated 1299863 APPROVED
2006-02-09 LOC316131  similar to sex-determination protein homolog Fem1a      Symbol and Name status set to provisional 70820 PROVISIONAL