DBX1 (developing brain homeobox 1)

Gene: DBX1 (developing brain homeobox 1) Sus scrofa

Analyze

Symbol:

DBX1

Name:

developing brain homeobox 1

RGD ID:

14076566

Description:

ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); INVOLVED IN regulation of transcription by RNA polymerase II (ortholog); ventral spinal cord interneuron specification (ortholog); ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); genetic disease (ortholog); intellectual disability (ortholog); FOUND IN nucleus (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

homeobox protein DBX1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	39,229,356 - 39,234,969 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	39,229,392 - 39,234,304 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	42,118,417 - 42,123,019 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amyotrophic lateral sclerosis type 1 (ISO)

genetic disease (ISO)

intellectual disability (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell differentiation in spinal cord (IBA,IEA)

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (IBA,IEA,ISO)

ventral spinal cord interneuron specification (IEA,ISO)

Cellular Component

nucleus (IEA)

Molecular Function

DNA binding (IEA)

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

protein binding (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

DBX1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	39,229,356 - 39,234,969 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	39,229,392 - 39,234,304 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	42,118,417 - 42,123,019 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DBX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	20,156,155 - 20,160,475 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	20,156,155 - 20,160,475 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	20,177,701 - 20,182,021 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	20,134,336 - 20,138,446 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	11	20,310,390 - 20,314,496 (-)	NCBI		Celera
Cytogenetic Map	11	p15.1	NCBI
HuRef	11	19,861,122 - 19,865,226 (-)	NCBI		HuRef
CHM1_1	11	20,177,693 - 20,181,798 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	11	20,276,786 - 20,281,102 (-)	NCBI		T2T-CHM13v2.0

Dbx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	49,281,247 - 49,286,583 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	49,281,247 - 49,286,597 (-)	Ensembl		GRCm39 Ensembl
GRCm38	7	49,631,499 - 49,636,835 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	49,631,499 - 49,636,849 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	56,886,869 - 56,892,205 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	49,499,520 - 49,504,856 (-)	NCBI		MGSCv36	mm8
Celera	7	45,081,373 - 45,086,715 (-)	NCBI		Celera
Cytogenetic Map	7	B4	NCBI
cM Map	7	31.44	NCBI

Dbx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	108,484,846 - 108,490,381 (-)	NCBI		GRCr8
mRatBN7.2	1	99,348,638 - 99,354,173 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	99,349,608 - 99,354,038 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	104,703,682 - 104,708,112 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	113,175,603 - 113,180,033 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	106,497,856 - 106,502,286 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	104,969,218 - 104,973,648 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	104,969,218 - 104,973,648 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	106,021,689 - 106,026,119 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	99,437,189 - 99,441,619 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	99,515,299 - 99,519,730 (-)	NCBI
Celera	1	93,549,691 - 93,554,121 (-)	NCBI		Celera
Cytogenetic Map	1	q22	NCBI

Dbx1
(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_004955476	1,018,715 - 1,022,545 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955476	1,018,715 - 1,022,648 (-)	NCBI	ChiLan1.0	ChiLan1.0

DBX1
(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	9	22,457,339 - 22,461,675 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	22,417,188 - 22,421,530 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	20,180,704 - 20,185,164 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	11	20,093,083 - 20,097,227 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	11	20,092,540 - 20,097,727 (-)	Ensembl	panpan1.1		panPan2

DBX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	21	42,207,205 - 42,214,954 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	21	42,208,346 - 42,212,415 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	21	41,685,661 - 41,689,593 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	21	43,330,076 - 43,334,024 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	21	43,328,937 - 43,334,024 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	21	42,332,505 - 42,336,439 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	21	42,508,028 - 42,511,957 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	21	42,888,831 - 42,892,779 (-)	NCBI		UU_Cfam_GSD_1.0

Dbx1
(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_024404947	42,782,467 - 42,788,187 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936654	1,139,500 - 1,143,477 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936654	1,139,500 - 1,143,477 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DBX1
(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	1	44,848,976 - 44,853,790 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	1	44,848,996 - 44,853,122 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	142,183,250 - 142,188,142 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Dbx1
(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_004624766	11,440,470 - 11,444,150 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624766	11,431,699 - 11,444,150 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in DBX1
119 total Variants

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	endocrine system	nervous system
High
Medium
Low	1	1
Below cutoff	2	3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_003122916	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CU571227	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000014579 ⟹ ENSSSCP00000014184

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	2	39,229,356 - 39,234,969 (+)	Ensembl

RefSeq Acc Id:

XM_003122916 ⟹ XP_003122964

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	2	39,229,392 - 39,234,304 (+)	NCBI

Sequence:

show sequence

GGCCACTATAAAACCATCACCTCGACGGGAAGACCACGGAGGACTCGCAGACGCCCAAGTGGGA
TCGTTACTTGAAGACGCTAGCTAAGCCCAAGAGAGAGGGCACAGTGGGGGCGGGAGGGGCGGGA
AGCCAGGCATTTACCCTCTGGCCACTGGAAGAAGGTTTTTTTTCCGCCCCGCCCCGCGCCTAAC
ATGATGTTCCCCGGCCTCCTCGCGCCCCCCGCCGGGTACCCCAGCCTCTTGCGCCCCACGCCCA
CCTTAACGCTGCCCCAGTCCCTGCAGTCGGCATTTTCCGGCCACTCGAGCTTTCTGGTGGAGGA
TCTGATCCGAATCAGCCGACCCCCCGCCTATCTGCCCCGCAGCGTGCCCACGGCCAGCATGTCG
CCCCCTAGGCAGGGGGCTGCTGCGGCTCTCACGGACTCCGGGGCCTCGGACCTAGGCTCCCCCG
GTCCAGGCAGCCGGCGGGGCGGCGCATCGCAGACCGCTGTCTCCCCTGCCAGCGAGCCCACGTT
TCTGAAGTTTGGAGTGAACGCCATCCTCTCCTCGGCGCCCAGAACCGAAACGTCCCCTGCCTTG
CTCCAGAGTGTCCCTCCTAAGACCTTCGCCTTTCCCTACTTTGAAGGCTCCTTCCAGCCTTTCA
TCAGATCATCTTATTTCCCAGCGTCCTCCAGCGTCGTGCCCATCCCGGGGACCTTCTCCTGGCC
CCTGGCCGCCCGCGGCAAGCCTCGCAGGGGCATGCTGCGTCGAGCCGTGTTCTCCGACGTTCAG
CGCAAGGCGCTGGAGAAGATGTTCCAGAAGCAGAAGTACATCAGCAAGCCCGACCGCAAGAAGC
TGGCGGCCAAGTTGGGCTTGAAAGACTCACAGGTGAAAATCTGGTTCCAGAACCGACGCATGAA
GTGGCGGAACTCCAAAGAGCGCGAGCTCTTGTCTAGCGGGGGCTGCCGCGAGCAGACCCTTCCC
ACTAAACTCAATCCTCACCCCGACCTCAGCGACGTGGGCCAGAAAGGTCCCGGGGACGACGAAG
AGGACGACGAGGGCCGGGGCAGCCCCCGCCACCGCCTGGTCTATCACGCGTCCCCAGACCCTCG
GCACCTGCGGGTCGAACGGCTCGAAGGGCCGCTGCCTCCCTCGCCCGCGCACTCTGGCAGCCCA
GACAAACCTTCGGACTTCTCAGACTCGGAGGAGGATGAGGAGGGCGAGGAGGAGGAGATCACCG
TATCTTAGAAGCGAGCCCGCGCCCAGGGTGCTGATTATATAAGTGCTTTGAAATTGAAGAGGTG
GGATTCAGTGCCTGTTCACTTGGTCCTTGCTGCCCAGACGCTGCCCCACTCCCCGCCGTGGAAG
TGTCACCTCGTTGAGGGCACCCCACCCCTTCCATTGTCCCAAATGACAGTCCCCACACCACCTC
CCAACAGCCCTCTTCACAAAAGTTAAATTTAGGCCTTGGTCCCAGCTTTAACTTTTCCAGGAGG
GTTCCTGTCGGCCTGGTTTATTGCAAGCTATTTTAAATACAGTGGGATGTTCACTTCCACACCT
GGGTTTAGCTGTGAGCCAGGCCCTGCTGGTCTTCAGCAGCAACAGCCCTATAAGAAACCCTTTA
TGAGGTAGGAAACCAAGATAGGAGTCACAGCATCAAGCATATAACTTCGAGACCTCTAACTTTC
TAGATCCCTCCACTTCCCCATCTTAGACAGCAAGGGCCTTCTACCCACTCCAGACTCTGGTAGC
CCCATCTTCCCATAACAGTGCCCTTAGAAACCCCAAGAATTAAAAAAAAAAAAATTATCTGTGC
CTTCTGGTCTAAGGTACCACATATTGAGTCTTTTCTAGGTGTCATATTCCAAATGCTGTCTGAG
CTAAAAGTGAGTTCCCCTACATGGGAAAAAGAATCAGTCTCTTTTTTTTTGTCTTTTCTATGGC
TGCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_003122964	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000014184
	ENSSSCP00000014184.1
	ENSSSCP00015044396.1
	ENSSSCP00025040633.1
	ENSSSCP00030041471.1
	ENSSSCP00035031298.1
	ENSSSCP00040008114.1
	ENSSSCP00045023710.1
	ENSSSCP00050017199.1
	ENSSSCP00060038447.1
	ENSSSCP00065020154.1

RefSeq Acc Id:

XP_003122964 ⟸ XM_003122916

- UniProtKB:

F1SFY4 (UniProtKB/TrEMBL), A0A8D0T972 (UniProtKB/TrEMBL), A0A8D0QEJ8 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MMFPGLLAPPAGYPSLLRPTPTLTLPQSLQSAFSGHSSFLVEDLIRISRPPAYLPRSVPTASMS
PPRQGAAAALTDSGASDLGSPGPGSRRGGASQTAVSPASEPTFLKFGVNAILSSAPRTETSPAL
LQSVPPKTFAFPYFEGSFQPFIRSSYFPASSSVVPIPGTFSWPLAARGKPRRGMLRRAVFSDVQ
RKALEKMFQKQKYISKPDRKKLAAKLGLKDSQVKIWFQNRRMKWRNSKERELLSSGGCREQTLP
TKLNPHPDLSDVGQKGPGDDEEDDEGRGSPRHRLVYHASPDPRHLRVERLEGPLPPSPAHSGSP
DKPSDFSDSEEDEEGEEEEITVS

hide sequence

RefSeq Acc Id:

ENSSSCP00000014184 ⟸ ENSSSCT00000014579

Protein Domains

Homeobox

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000013350	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00015078263	UniProtKB/TrEMBL
	ENSSSCG00025067410	UniProtKB/TrEMBL
	ENSSSCG00030064353	UniProtKB/TrEMBL
	ENSSSCG00035057262	UniProtKB/TrEMBL
	ENSSSCG00040014589	UniProtKB/TrEMBL
	ENSSSCG00045020054	UniProtKB/TrEMBL
	ENSSSCG00050030980	UniProtKB/TrEMBL
	ENSSSCG00060065081	UniProtKB/TrEMBL
	ENSSSCG00065034447	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000014579	ENTREZGENE
	ENSSSCT00000014579.3	UniProtKB/TrEMBL
	ENSSSCT00015105835.1	UniProtKB/TrEMBL
	ENSSSCT00025092587.1	UniProtKB/TrEMBL
	ENSSSCT00030089960.1	UniProtKB/TrEMBL
	ENSSSCT00035076582.1	UniProtKB/TrEMBL
	ENSSSCT00040019548.1	UniProtKB/TrEMBL
	ENSSSCT00045034186.1	UniProtKB/TrEMBL
	ENSSSCT00050041637.1	UniProtKB/TrEMBL
	ENSSSCT00060088838.1	UniProtKB/TrEMBL
	ENSSSCT00065046869.1	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
	HTH_motif	UniProtKB/TrEMBL
KEGG Report	ssc:100520887	UniProtKB/TrEMBL
NCBI Gene	DBX1	ENTREZGENE
PANTHER	DBX	UniProtKB/TrEMBL
	HOMEOBOX PROTEIN DBX1	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	SSF46689	UniProtKB/TrEMBL
UniProt	A0A8D0QEJ8	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0T972	ENTREZGENE, UniProtKB/TrEMBL
	F1SFY4	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:87170	ENTREZGENE

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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