BARX1 (BARX homeobox 1) - Rat Genome Database

Name: BARX1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: BARX1 (BARX homeobox 1) Pan paniscus

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Symbol:

BARX1

Name:

BARX homeobox 1

RGD ID:

12043199

Description:

ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); INVOLVED IN animal organ development (ortholog); anterior/posterior pattern specification (ortholog); cell-cell signaling (ortholog); ASSOCIATED WITH esophagus adenocarcinoma (ortholog); hiatus hernia (ortholog); FOUND IN nucleus (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

homeobox protein BarH-like 1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	BARX1 (BARX homeobox 1)	NCBI	Ortholog
Mus musculus (house mouse):	Barx1 (BarH-like homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Barx1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Barx1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	BARX1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Barx1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	BARX1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	BARX1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Barx1 (BARX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	11	45,400,331 - 45,479,310 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	45,402,711 - 45,481,693 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	65,071,990 - 65,151,152 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	93,133,691 - 93,212,391 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

esophagus adenocarcinoma (ISO)

hiatus hernia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

animal organ development (IEA,ISO)

anterior/posterior pattern specification (IEA,ISO)

cell-cell signaling (IEA,ISO)

digestive system development (IEA,ISO)

endothelial cell differentiation (IEA,ISO)

negative regulation of Wnt signaling pathway (IEA,ISO)

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (IEA)

spleen development (IEA,ISO)

tissue development (IEA,ISO)

Wnt signaling pathway (IEA,ISO)

Cellular Component

nucleus (IEA)

Molecular Function

DNA binding (IEA)

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

References

Additional References at PubMed

PMID:22301074

Genomics

Comparative Map Data

BARX1
(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	11	45,400,331 - 45,479,310 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	45,402,711 - 45,481,693 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	65,071,990 - 65,151,152 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	93,133,691 - 93,212,391 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

BARX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	93,951,627 - 93,955,355 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	93,951,627 - 93,955,355 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	96,713,909 - 96,717,637 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	95,753,730 - 95,757,429 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	9	93,793,463 - 93,797,157	NCBI
Celera	9	67,155,476 - 67,159,081 (-)	NCBI		Celera
Cytogenetic Map	9	q22.32	NCBI
HuRef	9	66,390,835 - 66,397,692 (-)	NCBI		HuRef
CHM1_1	9	96,860,800 - 96,864,365 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	106,119,614 - 106,123,341 (-)	NCBI		T2T-CHM13v2.0

Barx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	48,816,512 - 48,819,983 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	48,816,474 - 48,819,983 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	48,663,036 - 48,666,507 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	48,662,998 - 48,666,507 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	48,758,405 - 48,761,876 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	48,675,232 - 48,678,457 (+)	NCBI		MGSCv36	mm8
Celera	13	49,753,525 - 49,756,996 (+)	NCBI		Celera
Cytogenetic Map	13	A5	NCBI
cM Map	13	24.9	NCBI

Barx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	16,196,764 - 16,200,239 (-)	NCBI		GRCr8
mRatBN7.2	17	15,990,412 - 15,993,887 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	15,990,412 - 15,993,887 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	15,869,942 - 15,873,394 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	17,474,921 - 17,478,373 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	15,796,731 - 15,800,183 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	14,824,721 - 14,828,196 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	14,824,734 - 14,828,329 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	16,875,794 - 16,879,269 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	21,993,765 - 21,997,240 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	21,993,839 - 21,997,209 (-)	NCBI
Celera	17	15,717,041 - 15,720,516 (-)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

Barx1
(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_004955515	4,229,783 - 4,234,191 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955515	4,230,713 - 4,234,189 (+)	NCBI	ChiLan1.0	ChiLan1.0

BARX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	98,036,444 - 98,039,818 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	98,036,227 - 98,039,845 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	98,432,652 - 98,436,038 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	98,654,250 - 98,657,636 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	98,654,081 - 98,657,631 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	98,269,046 - 98,272,432 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	98,005,186 - 98,008,562 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	98,759,696 - 98,763,082 (+)	NCBI		UU_Cfam_GSD_1.0

Barx1
(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_024404944	8,938,453 - 8,946,971 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004937000	88,529 - 92,147 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004937000	88,529 - 96,794 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

BARX1
(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	43,284,464 - 43,288,281 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	43,284,609 - 43,288,269 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	44,604,095 - 44,607,784 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

BARX1
(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	12	104,299,516 - 104,307,613 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	104,303,265 - 104,306,251 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	92,615,149 - 92,618,888 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Barx1
(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_004624868	2,679,590 - 2,683,079 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624868	2,679,590 - 2,683,155 (+)	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_008959990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034967770	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000011	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_008959990 ⟹ XP_008958238

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	11	45,400,331 - 45,479,310 (+)	NCBI
NHGRI_mPanPan1	9	45,402,711 - 45,481,686 (+)	NCBI
Mhudiblu_PPA_v0	9	65,071,990 - 65,151,152 (-)	NCBI
PanPan1.1	9	93,133,691 - 93,212,391 (-)	NCBI

Sequence:

show sequence

GTGAGGGAATCGTGAGGGACGCTGAGGGGATGGCGCGGGTGCGGAAAAGGGACCCTAAGTAACG
GGACGGCGTGAGGACGGCTAGGGGACGGCGCGAGCCAAGAAGGACGGCGGCGGAGCTGGCTGCA
AGCGCTCCCCGGCCACAGGGTCGAGAAGAGTGAATGGAGGAAGAGCCAGGAGAGCCCTGGAGCA
CCGCGGACGGAACCCAGCGACTGGCCGCCTCTCTCCGGGCGCGCTTCCTGTGTTGTTCCTCCTG
CTTCTACTGGTCCTATCGTCCCAACTCTTACGGCGTCGCGGCCCCAGGTGGTTCAGAGAAATCC
GAGGAGCAGAATCTAGCCGTGCTGAAGGCCGAGCAGGCGGCGGTGTTCAAGTTCCCACTGGCGC
CGCTGGGCTGTTCAGGGCTGAGCTCTGCGCTGCTGGCGGCAGGGCCTGGGCTGCCCGGCGCCGC
GGGTGCGCCACACCTGCCGCTCGAGTTGCAGCTCCGCGGGAAGCTGGAGGCGGCAGGCCCTGGG
GAGCCAGGCACCAAGGCCAAGAAGGGGCGTCGGAGCCGCACTGTGTTCACCGAGCTGCAGCTGA
TGGGCCTGGAGAAACGCTTCGAGAAGCAGAAGTACCTTTCCACGCCGGACAGAATAGATCTTGC
TGAGTCCCTGGGCCTGAGCCAGTTGCAGGTGAAGACGTGGTACCAGAATCGGAGGATGAAGTGG
AAGAAAATAGTGCTGCAGGGCGGCGGCCTGGAGTCTCCCACCAAGCCCAAGGGGCGGCCCAAGA
AGAACTCAATTCCAACGAGCGAGCAGCTTACTGAGCAGGAGCGCGCCAAGGATGCAGAGAAACC
GGCGGAGGTGCCGGGCGAGCCCAGCGACAGGAGCCGCGAGGACTGAGGGCGGTATACGGTGCGG
GGCCTGGGATGCCCGCGCCACCCGCAGCCCCCTCACTCGGCGGAAACCCGCGAGCCGGCCCTTC
CGCGTCCAAGAAGTTTACTTCCTAAACCTTTTTATTATGATCTTGAATGCGGACAATTGGGGCC
AAACGAGGAAGGACACAGACCCTAAAGCCAGACCCAGGTCCCAGCGCGCTTCTGGGCTCTAACC
TGGGAGACTCGCATCCAGTGCGGCGGAAGCTACAGTCTCTACCCTGAGCTCCGTGGCGCAGAGC
GCTCCACGCGCATTCACGCCCCGCTCCTCGCCTGCACCCCCACCCCGTCTGGGGCCTGCCCTCC
CGGCCGGGGAGCCTCCAGGCACACACCCGCTTCTGGACGTCGGGGACCCAGCGGTTGGGCTCAG
GCCACAACGGCCTGAGATTGCCCCGGGGCAACCCGTCGGCTCGGCCTGGAGGCCGGGTCCCCGA
TGTCGCTGGGGCCCCTACCCCCTCTTGCGAAGACGGTGACTTTTTTTCCAATAAAATATTTTAT
GACACAATCGGG

hide sequence

RefSeq Acc Id:

XM_034967770 ⟹ XP_034823661

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	11	45,475,584 - 45,479,310 (+)	NCBI
NHGRI_mPanPan1	9	45,477,965 - 45,481,693 (+)	NCBI
Mhudiblu_PPA_v0	9	65,071,990 - 65,075,728 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_008958238	(Get FASTA)	NCBI Sequence Viewer
	XP_034823661	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSPPAP00000011186.1

RefSeq Acc Id:	XP_008958238 ⟸ XM_008959990
- Peptide Label:	isoform X2
- UniProtKB:	A0A2R9A727 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEEEPGEPWSTADGTQRLAASLRARFLCCSSCFYWSYRPNSYGVAAPGGSEKSEEQNLAVLKAE QAAVFKFPLAPLGCSGLSSALLAAGPGLPGAAGAPHLPLELQLRGKLEAAGPGEPGTKAKKGRR SRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKIVLQGGGLE SPTKPKGRPKKNSIPTSEQLTEQERAKDAEKPAEVPGEPSDRSRED hide sequence

RefSeq Acc Id:	XP_034823661 ⟸ XM_034967770
- Peptide Label:	isoform X1

Protein Domains

Homeobox

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000028799	UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000033841.1	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	Homeobox-like_sf	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_dom	UniProtKB/TrEMBL
	Homeobox_metazoa	UniProtKB/TrEMBL
	Homeobox_TF	UniProtKB/TrEMBL
	HTH_motif	UniProtKB/TrEMBL
NCBI Gene	BARX1	ENTREZGENE
PANTHER	BARX HOMEOBOX 1	UniProtKB/TrEMBL
	HOMEO BOX HB9 LIKE A-RELATED	UniProtKB/TrEMBL
Pfam	Homeodomain	UniProtKB/TrEMBL
PRINTS	HOMEOBOX	UniProtKB/TrEMBL
	HTHREPRESSR	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	Homeodomain-like	UniProtKB/TrEMBL
UniProt	A0A2R9A727	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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