Eomes (eomesodermin) - Rat Genome Database

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Gene: Eomes (eomesodermin) Rattus norvegicus
Analyze
Symbol: Eomes
Name: eomesodermin
RGD ID: 1359706
Description: Predicted to enable several functions, including DNA binding activity; DNA-binding transcription factor activity, RNA polymerase II-specific; and transcription corepressor activity. Predicted to be involved in several processes, including CD8-positive, alpha-beta T cell differentiation involved in immune response; gastrulation; and nervous system development. Predicted to act upstream of or within several processes, including endoderm formation; nervous system development; and trophectodermal cell differentiation. Predicted to be active in chromatin and nucleus. Orthologous to human EOMES (eomesodermin); PARTICIPATES IN interleukin-12 signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: eomesodermin homolog; eomesodermin homolog (Xenopus laevis); LOC316052
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88127,059,215 - 127,067,070 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8127,059,215 - 127,067,070 (+)EnsemblGRCr8
mRatBN7.28118,181,340 - 118,189,186 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8118,181,777 - 118,188,316 (+)EnsemblmRatBN7.2
Rnor_6.08127,144,367 - 127,152,618 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8127,144,903 - 127,151,493 (+)Ensemblrn6Rnor6.0
Rnor_5.08126,369,713 - 126,375,233 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48123,376,689 - 123,383,451 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8117,369,438 - 117,374,985 (+)NCBICelera
RGSC_v3.18123,398,873 - 123,402,528 (+)NCBI
Cytogenetic Map8q32NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetaldehyde  (ISO)
acetic acid  (ISO)
acrylamide  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromochloroacetic acid  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
cisplatin  (EXP,ISO)
Citreoviridin  (ISO)
Cuprizon  (EXP)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
dimethylarsinic acid  (ISO)
dorsomorphin  (ISO)
ethanol  (EXP)
ethyl methanesulfonate  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hexachlorophene  (ISO)
iron dichloride  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methylmercury chloride  (ISO)
Monobutylphthalate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N-nitrosourea  (ISO)
nickel atom  (ISO)
Nutlin-3  (ISO)
okadaic acid  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
PCB138  (ISO)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
propanal  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
staurosporine  (ISO)
T-2 toxin  (ISO)
temozolomide  (ISO)
testosterone  (EXP)
thioacetamide  (EXP)
tributylstannane  (ISO)
triclosan  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IBA,IEA,ISO)
nucleus  (IBA,IEA,ISO)

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. A novel mammalian T-box-containing gene, Tbr2, expressed in mouse developing brain. Kimura N, etal., Brain Res Dev Brain Res 1999 Jun 2;115(2):183-93.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI 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. Eomesodermin is required for mouse trophoblast development and mesoderm formation. Russ AP, etal., Nature 2000 Mar 2;404(6773):95-9.
10. A combined analysis of genomic and primary protein structure defines the phylogenetic relationship of new members if the T-box family. Wattler S, etal., Genomics 1998 Feb 15;48(1):24-33.
Additional References at PubMed
PMID:14605368   PMID:15788452   PMID:15880683   PMID:16325584   PMID:16892058   PMID:17353897   PMID:17566017   PMID:18171685   PMID:18794345   PMID:18940588   PMID:19409883   PMID:19435790  
PMID:19796622   PMID:20176728   PMID:20399120   PMID:20713518   PMID:21245162   PMID:21822279   PMID:22147266   PMID:22164283   PMID:23431145   PMID:23434913   PMID:25100583   PMID:26494787  
PMID:27539959  


Genomics

Comparative Map Data
Eomes
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88127,059,215 - 127,067,070 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8127,059,215 - 127,067,070 (+)EnsemblGRCr8
mRatBN7.28118,181,340 - 118,189,186 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8118,181,777 - 118,188,316 (+)EnsemblmRatBN7.2
Rnor_6.08127,144,367 - 127,152,618 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8127,144,903 - 127,151,493 (+)Ensemblrn6Rnor6.0
Rnor_5.08126,369,713 - 126,375,233 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48123,376,689 - 123,383,451 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8117,369,438 - 117,374,985 (+)NCBICelera
RGSC_v3.18123,398,873 - 123,402,528 (+)NCBI
Cytogenetic Map8q32NCBI
EOMES
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38327,715,953 - 27,722,713 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl327,715,949 - 27,722,711 (-)Ensemblhg38GRCh38
GRCh37327,757,444 - 27,764,204 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36327,732,872 - 27,738,789 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34327,732,890 - 27,738,789NCBI
Celera327,694,279 - 27,700,196 (-)NCBICelera
Cytogenetic Map3p24.1NCBI
HuRef327,699,819 - 27,706,575 (-)NCBIHuRef
CHM1_1327,707,433 - 27,714,192 (-)NCBICHM1_1
T2T-CHM13v2.0327,718,036 - 27,724,801 (-)NCBIT2T-CHM13v2.0
Eomes
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399118,307,259 - 118,315,176 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9118,307,280 - 118,315,200 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm389118,478,186 - 118,486,132 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9118,478,212 - 118,486,132 (+)Ensemblmm10GRCm38
MGSCv379118,387,307 - 118,395,250 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369118,327,042 - 118,334,830 (+)NCBIMGSCv36mm8
Celera9118,948,428 - 118,956,371 (+)NCBICelera
Cytogenetic Map9F3NCBI
cM Map970.21NCBI
Eomes
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543019,281,602 - 19,286,867 (-)Ensembl
ChiLan1.0NW_00495543019,280,460 - 19,287,060 (-)NCBIChiLan1.0ChiLan1.0
EOMES
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2227,660,108 - 27,667,051 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1327,664,874 - 27,671,819 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0327,601,829 - 27,608,701 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1327,923,970 - 27,930,687 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl327,925,086 - 27,930,274 (-)EnsemblpanPan2panpan1.1
EOMES
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12316,476,498 - 16,512,406 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2316,506,032 - 16,511,527 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2316,470,654 - 16,506,596 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02316,772,614 - 16,808,585 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2316,801,788 - 16,808,573 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12316,596,607 - 16,632,527 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02316,709,336 - 16,745,304 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02316,774,662 - 16,810,661 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Eomes
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118185,687,397 - 185,694,575 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647318,825,942 - 18,833,179 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647318,825,969 - 18,833,179 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EOMES
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1314,209,736 - 14,215,797 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11314,209,590 - 14,216,184 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21315,846,197 - 15,852,753 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EOMES
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11572,257,626 - 72,264,563 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604145,447,831 - 45,454,607 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Eomes
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247885,550,445 - 5,557,321 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247885,550,569 - 5,557,342 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Eomes
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18109,713,536 - 109,721,059 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:19
Interacting mature miRNAs:23
Transcripts:ENSRNOT00000013530
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat


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
16 5 48 137 76 76 45 92 45 6 315 169 11 112 81 90 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000013530   ⟹   ENSRNOP00000013530
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8127,059,215 - 127,067,070 (+)Ensembl
mRatBN7.2 Ensembl8118,181,777 - 118,188,316 (+)Ensembl
Rnor_6.0 Ensembl8127,144,903 - 127,151,493 (+)Ensembl
RefSeq Acc Id: NM_001427393   ⟹   NP_001414322
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88127,059,215 - 127,067,070 (+)NCBI
RefSeq Acc Id: XM_063265651   ⟹   XP_063121721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88127,059,226 - 127,065,466 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001414322 (Get FASTA)   NCBI Sequence Viewer  
  XP_063121721 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAR21241 (Get FASTA)   NCBI Sequence Viewer  
  EDL76935 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013530
  ENSRNOP00000013530.6
Ensembl Acc Id: ENSRNOP00000013530   ⟸   ENSRNOT00000013530
RefSeq Acc Id: NP_001414322   ⟸   NM_001427393
- UniProtKB: D3ZY52 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063121721   ⟸   XM_063265651
- Peptide Label: isoform X1
Protein Domains
T-box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZY52-F1-model_v2 AlphaFold D3ZY52 1-699 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:1359706 AgrOrtholog
BioCyc Gene G2FUF-28818 BioCyc
Ensembl Genes ENSRNOG00000042140 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013530 ENTREZGENE
  ENSRNOT00000013530.7 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.820 UniProtKB/TrEMBL
InterPro p53-like_TF_DNA-bd UniProtKB/TrEMBL
  T-box_assoc UniProtKB/TrEMBL
  T-box_DNA-bd UniProtKB/TrEMBL
  T-box_sf UniProtKB/TrEMBL
  TF_T-box UniProtKB/TrEMBL
  TF_T-box_CS UniProtKB/TrEMBL
NCBI Gene 316052 ENTREZGENE
PANTHER EOMESODERMIN HOMOLOG UniProtKB/TrEMBL
  PTHR11267 UniProtKB/TrEMBL
Pfam T-box UniProtKB/TrEMBL
  T-box_assoc UniProtKB/TrEMBL
PhenoGen Eomes PhenoGen
PRINTS TBOX UniProtKB/TrEMBL
PROSITE TBOX_1 UniProtKB/TrEMBL
  TBOX_2 UniProtKB/TrEMBL
  TBOX_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000042140 RatGTEx
SMART TBOX UniProtKB/TrEMBL
Superfamily-SCOP SSF49417 UniProtKB/TrEMBL
UniProt D3ZY52 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Eomes  eomesodermin  Eomes  eomesodermin homolog (Xenopus laevis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Eomes  eomesodermin homolog (Xenopus laevis)  LOC316052  eomesodermin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 LOC316052  eomesodermin      Symbol and Name status set to provisional 70820 PROVISIONAL