Emx1 (empty spiracles homeobox 1)

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Gene: Emx1 (empty spiracles homeobox 1) Ictidomys tridecemlineatus

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Symbol:

Emx1

Name:

empty spiracles homeobox 1

RGD ID:

12589515

Description:

ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); RNA polymerase II cis-regulatory region sequence-specific DNA binding (inferred); INVOLVED IN brain development (ortholog); brain morphogenesis (ortholog); cerebral cortex development (ortholog); ASSOCIATED WITH Alstrom syndrome (ortholog); congenital disorder of glycosylation type IIb (ortholog); dystonia (ortholog); FOUND IN chromosome (inferred); nucleolus (inferred); nucleus (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

empty spiracles homeobox 1, transcript variant X1; empty spiracles homeobox 1, transcript variant X2; homeobox protein EMX1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	11,808,868 - 11,825,994 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936491	16,745,310 - 16,762,422 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936491	16,745,310 - 16,762,422 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alstrom syndrome (ISO)

congenital disorder of glycosylation type IIb (ISO)

dystonia (ISO)

Methylmalonyl-CoA Epimerase Deficiency (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

brain development (IEA,ISO)

brain morphogenesis (IEA,ISO)

central nervous system development (IEA)

cerebral cortex development (IEA,ISO)

cerebral cortex neuron differentiation (IEA,ISO)

cerebral cortex regionalization (IEA,ISO)

homeostasis of number of cells (IEA,ISO)

in utero embryonic development (IEA,ISO)

neuroepithelial cell differentiation (IEA,ISO)

neuron differentiation (IEA,ISO)

neuron projection extension (IEA,ISO)

post-embryonic development (IEA,ISO)

radial glial cell differentiation (IEA,ISO)

regulation of DNA-templated transcription (IEA)

regulation of oligodendrocyte progenitor proliferation (IEA,ISO)

regulation of transcription by RNA polymerase II (IEA)

response to xenobiotic stimulus (IEA,ISO)

telencephalon development (IEA,ISO)

Cellular Component

chromosome (IEA)

nucleolus (IEA)

nucleus (IEA)

Molecular Function

DNA binding (IEA)

DNA-binding transcription factor activity, RNA polymerase II-specific (IEA)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IEA)

sequence-specific double-stranded DNA binding (IEA)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Emx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	11,808,868 - 11,825,994 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936491	16,745,310 - 16,762,422 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936491	16,745,310 - 16,762,422 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

EMX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	72,916,189 - 72,934,891 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	72,916,260 - 72,936,071 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	73,144,648 - 73,162,020 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	72,998,112 - 73,015,528 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	73,056,258 - 73,073,131	NCBI
Celera	2	72,995,445 - 73,012,863 (+)	NCBI		Celera
Cytogenetic Map	2	p13.2	NCBI
HuRef	2	72,880,195 - 72,897,613 (+)	NCBI		HuRef
CHM1_1	2	73,074,790 - 73,092,204 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	72,924,096 - 72,947,833 (+)	NCBI		T2T-CHM13v2.0

Emx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	85,164,913 - 85,181,445 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	85,164,420 - 85,181,444 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	85,187,931 - 85,204,463 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	85,187,438 - 85,204,462 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	85,137,925 - 85,154,457 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	85,153,589 - 85,170,016 (+)	NCBI		MGSCv36	mm8
Celera	6	87,159,523 - 87,176,441 (+)	NCBI		Celera
Cytogenetic Map	6	C3	NCBI
cM Map	6	37.21	NCBI

Emx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	119,282,692 - 119,300,822 (+)	NCBI		GRCr8
mRatBN7.2	4	117,725,148 - 117,741,616 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	117,725,155 - 117,741,613 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	4	116,967,646 - 116,984,136 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	116,968,000 - 116,985,551 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	181,547,418 - 181,563,890 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	119,420,621 - 119,436,740 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	106,708,318 - 106,724,802 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

Emx1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955424	12,664,104 - 12,683,023 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	12,666,280 - 12,683,023 (-)	NCBI	ChiLan1.0	ChiLan1.0

EMX1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	53,400,040 - 53,463,775 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	53,402,783 - 53,466,524 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	72,969,693 - 73,030,427 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	74,462,012 - 74,482,159 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

EMX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Dog10K_Boxer_Tasha	17	49,548,464 - 49,566,898 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	50,768,368 - 50,786,813 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	50,770,888 - 50,786,804 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	49,784,545 - 49,802,981 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	49,850,127 - 49,868,561 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	50,410,143 - 50,428,602 (-)	NCBI		UU_Cfam_GSD_1.0

EMX1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	69,839,890 - 69,859,731 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	69,842,061 - 69,863,940 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	73,041,590 - 73,061,316 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

EMX1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	34,232,425 - 34,250,807 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	34,232,819 - 34,249,253 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	77,830,619 - 77,850,156 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Emx1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624762	681,308 - 701,998 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624762	685,331 - 702,040 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005322153	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_021724266	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040271135	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010001352	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000026107 ⟹ ENSSTOP00000023066

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936491	16,745,310 - 16,762,422 (+)	Ensembl

RefSeq Acc Id:

XM_005322153 ⟹ XP_005322210

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024406292	11,808,868 - 11,825,977 (-)	NCBI
SpeTri2.0	NW_004936491	16,745,310 - 16,762,422 (+)	NCBI

Sequence:

show sequence

AGGTGAGCGGCGGCCAATGGGCGAGCGCCGGGCAGGTGCCCGCTAACTCGCGCCTAGCAGCGCG
GCTGCCGAGGCCTGACGGGGCAGTGCTGGGAGGATCGCGGGCGGGGGTCGGTCCTGGCGTGACT
TGGAAGGGAGGGAGCCGGGCACAAGCCTCCGGTCGTAGAGGCAGCTCATAGTGGCGCACGCAGA
CCGCGTTAGCGCCAGTGCCTGAGCCAGAAACTGCCCGCTTGGCCAGAGGGGCCGAAGCTCCAGG
CTGCGCGCGGTGGCCGGACTCTGTGCTAGCTCGCTCGCACACCCCTCGCCGCTCCGCTCCTGGC
TCGCCGGCGGGGGCCGAGCCCAGGCAGGCGGGCGGGGGAGGTGAGGGGTGCGGGTGTATGTGCA
TGTGCCTGGCTGGGTGCACACCCCGCAAGGCGGCAGCGCCAGGACACGGAGCGCTCCCCAGAGC
CCCGCTGCCTCTCACGGCTTCGGCGGCCGCGACCATGTTCCAGCCCGCGGCTAAGCGGGGTTTT
ACCATAGAATCCTTGGTGGCCAAGGACGGTGGCACCGGCGGGAGCACTGGAGGCGGGGGCGCGG
GCTCCCATCCCCTGGCGACGGCCGCTTCAGAGGAACCACTCCGGCCCACAGCGCTCAACTACCC
TCACCCCAGCGCGGCCGAGGCGGCCTTCGTGAGCGGCTTCCCCGCCGCAGCCGCCGCGGGCGCC
GGTCGCTCGCTCTACGGAGGGCCGGAGCTCGTGTTTCCCGAGGCCATGAACCACCCCGCGCTGA
CCGTGCACCCAGCGCACCAGCTGGGCGCCTCCCCGTTGCAGCCCCCGCACTCCTTCTTCGGCGC
CCAGCACCGGGACCCTCTCCACTTCTACCCCTGGGTCCTGCGGAACCGCTTCTTCGGCCACCGC
TTCCAGGCGAGCGACGTGCCCCAGGATGGGCTGCTTCTGCACGGCCCCTTCGCGCGCAAGCCCA
AGCGGATCCGCACGGCCTTCTCGCCCTCGCAGCTGCTGCGGCTGGAGCGCGCCTTCGAGAAGAA
CCACTACGTGGTGGGCGCCGAGCGGAAGCAGCTGGCCGGCAGCCTCAGCCTCTCCGAGACGCAG
GTGAAGGTGTGGTTCCAGAACCGGAGGACAAAATACAAACGACAGAAGCTGGAGGAGGAAGGGC
CTGAGTCCGAGCAGAAGAAGAAGGGTTCCCACCACATCAACCGGTGGCGCATTGCCACGAAGCA
GGCCAACGGGGAGGACATCGATGTCACCTCTAATGACTAAGGGAGCACCTACGAACCCATGAGG
GCAGAGTGCTGCTTGCTGCTGGCCAGGCCCCTGGGGGGCCCAAGCTGGACTCTGGCCACTCCCT
GGCCAGGCTGCAGGGAGGCCTCGAGTCACGGCCCCACAAGGCTTGGAGTCTGGGGCCATCACAG
ACAGAGGGACAAGAAATGGGCTGGCTGAAGCCTGGGACTGCTCAGCCTTCTCCTGGGAGAGCCT
GCCTGCCTGGTGGGCCGCCTGTCACCGCAGCCCCCGCCGCTCTCCATTTCTCTTATCTCCTTTT
TGTTTTGATGTATTTCTGTTTTAATTTATTTTCCAGGCAACTGCTATAGTTCTTAGTGATCCCC
TTGTGTCTCCCTTCCCTATGGGAATAATAAAAAAGTCTCTCTCTAATGA

hide sequence

RefSeq Acc Id:

XM_040271135 ⟹ XP_040127069

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024406292	11,812,797 - 11,825,994 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_005322210	(Get FASTA)	NCBI Sequence Viewer
	XP_040127069	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000023066.1
GenBank Protein	KAG3267102	(Get FASTA)	NCBI Sequence Viewer
	KAG3267103	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005322210 ⟸ XM_005322153
- Peptide Label:	isoform X1
- UniProtKB:	I3NFB9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MCMCLAGCTPRKAAAPGHGALPRAPLPLTASAAATMFQPAAKRGFTIESLVAKDGGTGGSTGGG GAGSHPLATAASEEPLRPTALNYPHPSAAEAAFVSGFPAAAAAGAGRSLYGGPELVFPEAMNHP ALTVHPAHQLGASPLQPPHSFFGAQHRDPLHFYPWVLRNRFFGHRFQASDVPQDGLLLHGPFAR KPKRIRTAFSPSQLLRLERAFEKNHYVVGAERKQLAGSLSLSETQVKVWFQNRRTKYKRQKLEE EGPESEQKKKGSHHINRWRIATKQANGEDIDVTSND hide sequence

RefSeq Acc Id:	XP_040127069 ⟸ XM_040271135
- Peptide Label:	isoform X2

Ensembl Acc Id:

ENSSTOP00000023066 ⟸ ENSSTOT00000026107

Protein Domains

Homeobox

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000027476	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000026107.2	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	EMX-VAX-Noto_Homeobox_TFs	UniProtKB/TrEMBL
	Homeobox-like_sf	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_dom	UniProtKB/TrEMBL
	Homeobox_metazoa	UniProtKB/TrEMBL
NCBI Gene	Emx1	ENTREZGENE
PANTHER	HOMEOBOX PROTEIN EMX-RELATED	UniProtKB/TrEMBL
	HOMEOBOX PROTEIN EMX1	UniProtKB/TrEMBL
Pfam	Homeodomain	UniProtKB/TrEMBL
PRINTS	HOMEOBOX	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	SSF46689	UniProtKB/TrEMBL
UniProt	I3NFB9	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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