Esx1 (ESX homeobox 1) - Rat Genome Database

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Gene: Esx1 (ESX homeobox 1) Rattus norvegicus
Analyze
Symbol: Esx1
Name: ESX homeobox 1
RGD ID: 1590738
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II and regulation of cell cycle. Predicted to act upstream of or within labyrinthine layer blood vessel development; labyrinthine layer morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm and nuclear speck. Orthologous to human ESX1 (ESX homeobox 1); INTERACTS WITH bisphenol A; 2,3,7,8-tetrachlorodibenzodioxine (ortholog); all-trans-retinoic acid (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein ESX1; LOC679219; similar to extraembryonic, spermatogenesis, homeobox 1
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
GRCr8X105,241,568 - 105,246,733 (-)NCBIGRCr8
mRatBN7.2X100,449,298 - 100,454,452 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.0X107,753,614 - 107,763,561 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X107,631,880 - 107,642,235 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX101,276,096 - 101,278,936 (-)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO)
nuclear speck  (ISO)
nucleus  (ISO)

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9806555   PMID:15235584   PMID:15897875   PMID:19796622   PMID:21873635  


Genomics

Comparative Map Data
Esx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X105,241,568 - 105,246,733 (-)NCBIGRCr8
mRatBN7.2X100,449,298 - 100,454,452 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.0X107,753,614 - 107,763,561 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X107,631,880 - 107,642,235 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX101,276,096 - 101,278,936 (-)NCBICelera
Cytogenetic MapXq32NCBI
ESX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X104,250,038 - 104,254,933 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX104,250,038 - 104,254,933 (-)EnsemblGRCh38hg38GRCh38
GRCh37X103,494,719 - 103,499,614 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X103,381,375 - 103,386,244 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X103,300,864 - 103,305,733NCBI
CeleraX103,969,308 - 103,974,187 (-)NCBICelera
Cytogenetic MapXq22.2NCBI
HuRefX93,122,628 - 93,127,081 (-)NCBIHuRef
CHM1_1X103,405,584 - 103,410,463 (-)NCBICHM1_1
T2T-CHM13v2.0X102,681,196 - 102,686,063 (-)NCBIT2T-CHM13v2.0
Esx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X136,016,146 - 136,022,880 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX136,016,146 - 136,022,832 (-)EnsemblGRCm39 Ensembl
GRCm38X137,115,397 - 137,122,131 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX137,115,397 - 137,122,083 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X133,649,936 - 133,654,865 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X132,461,761 - 132,466,535 (-)NCBIMGSCv36mm8
MGSCv36X116,432,065 - 116,438,845 (-)NCBIMGSCv36mm8
CeleraX120,400,756 - 120,405,588 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX59.1NCBI
Esx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555481,087,441 - 1,095,070 (-)NCBIChiLan1.0ChiLan1.0
ESX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X103,756,834 - 103,761,731 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X103,760,434 - 103,765,331 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X93,374,060 - 93,379,084 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X103,753,031 - 103,757,798 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX103,752,965 - 103,757,737 (-)Ensemblpanpan1.1panPan2
ESX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X77,608,014 - 77,612,715 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX77,608,016 - 77,612,784 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X79,226,340 - 79,231,047 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX79,226,507 - 79,230,807 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X76,710,416 - 76,715,123 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X78,413,285 - 78,417,992 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X78,145,906 - 78,150,616 (-)NCBIUU_Cfam_GSD_1.0
Esx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X77,501,409 - 77,505,976 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493649910,151,988 - 10,156,349 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ESX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X84,995,241 - 85,007,557 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X99,056,041 - 99,069,040 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ESX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X92,130,102 - 92,136,252 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606517,043,676 - 17,048,224 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Esx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480312,854,472 - 12,860,621 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Esx1
11 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:44
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000072739
Prediction methods:Microtar, Miranda, Rnahybrid
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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat


Expression

RNA-SEQ Expression


Sequence


RefSeq Acc Id: XM_039100644   ⟹   XP_038956572
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,241,568 - 105,246,733 (-)NCBI
mRatBN7.2X100,449,298 - 100,454,452 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001420087 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956572 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_038956572   ⟸   XM_039100644


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1590738 AgrOrtholog
BioCyc Gene G2FUF-1587 BioCyc
NCBI Gene 679219 ENTREZGENE
PhenoGen Esx1 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-11-07 Esx1  ESX homeobox 1  LOC679219  similar to extraembryonic, spermatogenesis, homeobox 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC679219  similar to extraembryonic, spermatogenesis, homeobox 1      Symbol and Name status set to provisional 70820 PROVISIONAL