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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

NKX6-3 Gene

protein-coding GIFtS: 39
GCID: GC08M041503

NK6 homeobox 3

(Previous names: NK6 transcription factor related, locus 3 (Drosophila)...)

Explore 2 diseases affiliated with
NKX6-3 via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
NK6 Homeobox 3¹ ²
NKX6.3² ⁵
FLJ25169¹
NK6 Transcription Factor Related, Locus 3 (Drosophila)¹
Homeobox Protein Nkx-6.3²
NK6 Transcription Factor Related, Locus 3²

External Ids:	HGNC: 26328¹	Entrez Gene: 157848²	Ensembl: ENSG00000165066⁷	OMIM: 610772⁵	UniProtKB: A6NJ46³

Export aliases for NKX6-3 gene to outside databases

Previous GC identifers: GC08M041622 GC08M040031

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for NKX6-3:

The NKX family of homeodomain proteins controls numerous developmental processes. Members of the NKX6 subfamily,

including NKX6-3, are involved in development of the central nervous system (CNS), gastrointestinal tract, and

pancreas (Alanentalo et al., 2006 (PubMed 16326147)).(supplied by OMIM, Mar 2008)

UniProtKB/Swiss-Prot: NKX63_HUMAN, A6NJ46

Function: Putative transcription factor, which may be involved in patterning of central nervous system and pancreas (By

similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000008.10 NC_018919.1 NT_167187.1

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the NKX6-3 gene promoter:
C/EBPbeta CP2 GATA-3 NF-kappaB2 NF-kappaB ATF Roaz
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: NKX6-3 promoter sequence

Search SABiosciences Chromatin IP Primers for NKX6-3

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NKX6-3

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 8p11.21 Ensembl cytogenetic band: 8p11.21 HGNC cytogenetic band: 8p11.21

NKX6-3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NKX6-3 gene location

GeneLoc information about chromosome 8 GeneLoc Exon Structure

GeneLoc location for GC08M041503: view genomic region (about GC identifiers)

Start:	41,502,697 bp from pter	End:	41,508,855 bp from pter
Size:	6,159 bases	Orientation:	minus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: NKX63_HUMAN, A6NJ46 (See protein sequence)

Recommended Name: Homeobox protein Nkx-6.3

Size: 265 amino acids; 28948 Da

Subcellular location: Nucleus (By similarity)

Secondary accessions: Q96LR0

Alternative splicing: 2 isoforms: A6NJ46-1 A6NJ46-2 (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for NKX6-3: NX_A6NJ46

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_A6NJ46

NKX6-3 Protein expression data from MOPED and PaxDb: --

REFSEQ proteins: NP_689781.1

ENSEMBL proteins:

ENSP00000429553 ENSP00000428361 ENSP00000414183

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Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005634	nucleus	IEA	--

NKX6-3 for ontologies About GeneDecksing

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(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

NKX6-3 for domains About GeneDecksing

5 InterPro domains/families:

IPR000047 HTH_motif

IPR017970 Homeobox_CS

IPR020479 Homeobox_metazoa

IPR001356 Homeodomain

IPR009057 Homeodomain-like

Graphical View of Domain Structure for InterPro Entry A6NJ46

ProtoNet protein and cluster: A6NJ46

UniProtKB/Swiss-Prot: NKX63_HUMAN, A6NJ46

Similarity: Contains 1 homeobox DNA-binding domain

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Molecular Function:

UniProtKB/Swiss-Prot Summary: NKX63_HUMAN, A6NJ46

Function: Putative transcription factor, which may be involved in patterning of central nervous system and pancreas (By

similarity)

Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000976	transcription regulatory region sequence-specific DNA binding	IEA	--
GO:0003700	sequence-specific DNA binding transcription factor activity	IEA	--

NKX6-3 for ontologies About GeneDecksing

Phenotypes:
2 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Nkx6-3):

digestive/alimentary

homeostasis/metabolism

NKX6-3 for phenotypes About GeneDecksing

Animal Models:
Mouse knock-out Nkx6-3^Nkx6-tm1Shiv for NKX6-3

inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for NKX6-3

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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for NKX6-3

Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006351	transcription, DNA-dependent	IEA	--

NKX6-3 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

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Search CenterWatch for drugs/clinical trials and news about NKX6-3 / NKX63

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
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About This Section

REFSEQ mRNAs for NKX6-3 gene:

NM_152568.2

Unigene Cluster for NKX6-3:

NK6 homeobox 3

Hs.647132

Unigene Representative Sequence: NM_152568

3 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000524115(uc003xoa.2 uc010lxa.1) ENST00000518699 ENST00000425142

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		hsa-miR-4271
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		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat NKX6-3

1 DOTS entry:

DT.75199521

4 AceView cDNA sequences:

AI969444 AK057898 NM_152568 D38706

GeneLoc Exon Structure

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

NKX6-3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TCTTTCTGCT

About this image

NKX6-3 expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

1 LifeMap In Vivo Development Anatomical Compartment/Cell

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Brain

Medulla Oblongata

Brain

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Genevestigator expression for NKX6-3

SOURCE GeneReport for Unigene cluster: Hs.647132

SABiosciences Custom PCR Arrays for NKX6-3

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In Situ
Assay Products:

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(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for NKX6-3 gene from 4/10 species (see all 10) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	E1C0H3_CHICK⁶	Uncharacterized protein	29(a)	1 ↔ 1	22(2659192-2661054)
lizard (Anolis carolinensis)	Reptilia	NKX6-3⁶	--	78(a)	1 ↔ 1	GL343578.1(405283-405513)
zebrafish (Danio rerio)	Actinopterygii	nkx6.3⁶	NK6 homeobox 3	25(a)	1 ↔ 1	8(39503632-39506306)
worm (Caenorhabditis elegans)	Secernentea	cog-1⁶	Connection Of Gonad defective family member (cog-1...	10(a)	1 ↔ 1	II(14902417-14907457)

ENSEMBL Gene Tree for NKX6-3 (if available)
TreeFam Gene Tree for NKX6-3 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for NKX6-3 gene

NOTO² EMX2² NKX6-1² NKX6-2² EMX1²

9 SIMAP similar genes for NKX6-3 using alignment to 1 protein entry: NKX63_HUMAN:

HMX2 HOXA4 HOXC13 NKX6-2 HOXB1 HLX

NKX6-1 MEOX1 POU6F1

NKX6-3 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

SNP ID	Valid	Clinical significance	Chr 8 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs140903890^1,2		--	41503431(+)	`GGTCTA/GAGGAG`	1	--	ds500¹		0	--	--	--	--
rs755162^1,2	C,F,A,H	--	41503727(+)	`CTGTGC/ACTCCC`	1	--	ds500¹		17		NA PA EA NS WA CSA	1271
rs149836006^1,2		--	41503741(+)	`TGGCCG/TCCTCC`	1	--	ds500¹		0	--	--	--	--
rs140821380^1,2	C	--	41503854(+)	`CATCC-/AAAG AAAGA`	1	--	ut3¹		0	--	--	--	--
rs144242085^1,2	C	--	41503922(+)	`GGCGT-/CCCCCC`	1	--	ut3¹		0	--	--	--	--
rs58895504^1,2	C	--	41503937(+)	`GGCTGC/AAGCCA`	1	--	ut3¹		3		CSA WA EA	240
rs200127895^1,2		--	41504007(+)	`AAGGCA/GGCGCG`	2	A	syn¹		0	--	--	--	--
rs138815732^1,2	C,F	--	41504012(+)	`GGCGCG/AGTGCT`	2	/R /C	mis¹		1		NA	4236
rs202195558^1,2		--	41504043(+)	`TTCTCA/GTCGTC`	2	D	syn¹		0	--	--	--	--
rs149367780^1,2	C,F	--	41504054(+)	`CGAGTC/AGGGGT`	2	/D /Y	mis¹		1		NA	4312

HapMap Linkage Disequilibrium report for NKX6-3 (41502697 - 41508855 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for NKX6-3: --

SABiosciences Cancer Mutation PCR Assays

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

NKX6-3 for disorders           About GeneDecksing

OMIM gene information: 610772    OMIM disorders: --

2 diseases for NKX6-3:    About MalaCards

hermaphroditism neuronitis

Export disorders for NKX6-3 gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for NKX6-3 gene integrated from 9 sources:
(articles sorted by number of sources associating them with NKX6-3)

Utopia: connect your pdf to the dynamic
world of online information

Cloning and analysis of Nkx6.3 during CNS and gastrointestinal development. (PubMed id 16326147)^{1, 3} Alanentalo T....Ahlgren U. (2006)
DNA sequence and analysis of human chromosome 8. (PubMed id 16421571)² Nusbaum C....Lander E.S. (2006)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)² Ota T.... Sugano S. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)¹ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 157848	HGNC: 26328	AceView: FLJ25169	Ensembl:ENSG00000165066	euGenes: HUgn157848
ECgene: NKX6-3	H-InvDB: NKX6-3

(According to HUGE)
About This Section

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
PharmGKB entry for NKX6-3	Pharmacogenomics, SNPs, Pathways

Intellectual Property for NKX6-3 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for NKX6-3 gene:
Search GeneIP for patents involving NKX6-3

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section


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	Browse OriGene full length recombinant human proteins expressed in human HEK293 cells		OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
	OriGene Custom Antibody Services for NKX6-3		OriGene Custom Protein Services for NKX6-3
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	QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat NKX6-3
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	QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat NKX6-3
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	GenScript Custom Purified and Recombinant Proteins Services for NKX6-3		GenScript cDNA clones with any tag delivered in your preferred vector for NKX6-3
	GenScript Custom Assay Services for NKX6-3		GenScript Custom Superior Antibodies Services for NKX6-3
	GenScript Custom overexpressing Cell Line Services for NKX6-3		CloneReady with Over 120,000 Genes
	Gene Synthesis: Any Gene in Any Vector		Vector-based siRNA and miRNA, Ready for Transfection
	Gene Mutant Library, Variants up to 10^11		Plasmid Preparation
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	SwitchGear 3'UTR luciferase reporter plasmids for NKX6-3
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat NKX6-3

inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for NKX6-3

Sirion Biotech Customized:

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GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013 , 14 May 2013

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Category			VWF (GIFTS: 73) von Willebrand factor
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The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

The GeneCards Human Gene Database

Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

Hot genes Disease genes NKX6-3 gene at Home site.

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NKX6-3 Gene

NK6 homeobox 3

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NKX6-3 Gene

NK6 homeobox 3

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