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Set Analyses:

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LHX6 Gene

protein-coding GIFtS: 52
GCID: GC09M124964

LIM Homeobox 6

See related diseases
at

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(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Aliases
LIM Homeobox 6¹ ²
LHX6.1² ³
LIM/Homeobox Protein Lhx6.1² ³
LIM Homeodomain Protein 6.1²
LIM/Homeobox Protein Lhx6²
LIM Homeobox Protein 6³

External Ids:	HGNC: 21735¹	Entrez Gene: 26468²	Ensembl: ENSG00000106852⁷	OMIM: 608215⁵	UniProtKB: Q9UPM6³

Export aliases for LHX6 gene to outside databases

Previous GC identifers: GC09M116069 GC09M116611 GC09M118418 GC09M120340 GC09M122044 GC09M124004 GC09M094579

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for LHX6 Gene:

This gene encodes a member of a large protein family that contains the LIM domain, a unique cysteine-rich

zinc-binding domain. The encoded protein may function as a transcriptional regulator and may be involved in the

control of differentiation and development of neural and lymphoid cells. Two alternatively spliced transcript

variants encoding distinct isoforms have been described for this gene. Alternatively spliced transcript variants

have been identified, but their biological validity has not been determined. (provided by RefSeq, Jul 2008)

GeneCards Summary for LHX6 Gene:

LHX6 (LIM homeobox 6) is a protein-coding gene. Diseases associated with LHX6 include cervix uteri carcinoma in situ, and cervical cancer. GO annotations related to this gene include sequence-specific DNA binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is ISL1.

UniProtKB/Swiss-Prot: LHX6_HUMAN, Q9UPM6

Function: Probable transcription factor required for the expression of a subset of genes involved in interneurons

migration and development. Functions in the specification of cortical interneuron subtypes and in the migration

of GABAergic interneuron precursors from the subpallium to the cerebral cortex (By similarity)

Gene Wiki entry for LHX6 Gene

(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:

NC_000009.12 NT_008470.20 NC_018920.2

Regulatory elements:

Regulatory transcription factor binding sites in the LHX6 gene promoter:
NF-1 NF-1/L Sox5 STAT2 STAT3 IRF-7A CUTL1 HNF-3beta STAT1alpha
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: LHX6 promoter sequence

Search Chromatin IP Primers for LHX6

Epigenetics:

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat LHX6

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

Entrez Gene cytogenetic band: 9q33.2 Ensembl cytogenetic band: 9q33.2 HGNC cytogenetic band: 9q33.2

LHX6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LHX6 gene location

GeneLoc information about chromosome 9 GeneLoc Exon Structure

GeneLoc location for GC09M124964: view genomic region (about GC identifiers)

Start:	124,964,856 bp from pter	End:	124,991,905 bp from pter
Size:	27,050 bases	Orientation:	minus strand

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: LHX6_HUMAN, Q9UPM6 (See protein sequence)

Recommended Name: LIM/homeobox protein Lhx6

Size: 363 amino acids; 40045 Da

Subunit: Interacts with LDB1 (via the LIM zinc-binding domains) (By similarity)

Sequence caution: Sequence=AAI03937.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

Sequence=AAI03938.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAB66505.1;

Type=Erroneous initiation; Note=Translation N-terminally extended;

Secondary accessions: A6PVQ1 A6PVQ2 A8K1B2 B7Z4D0 H0YN76 Q5T7S7 Q5T7S8 Q9NTK3 Q9UPM5

Alternative splicing: 6 isoforms: Q9UPM6-1 Q9UPM6-2 Q9UPM6-3 Q9UPM6-4 Q9UPM6-5 Q9UPM6-6 (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for LHX6: NX_Q9UPM6

Explore proteomics data for LHX6 at MOPED

Post-translational modifications:

Modification sites at neXtProt

Modification sites at PhosphoSitePlus

See LHX6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (5 alternative transcripts):

NP_001229262.1 NP_001229263.1 NP_001229264.1 NP_055183.2 NP_954629.2

ENSEMBL proteins:

ENSP00000362860 ENSP00000362859 ENSP00000340137 ENSP00000377854 ENSP00000475927

ENSP00000441464 ENSP00000452811 ENSP00000453798 ENSP00000453606

LHX6 Human Recombinant Protein Products:

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	GenScript Custom Purified and Recombinant Proteins Services for LHX6
	Novus Biologicals LHX6 Protein
	Browse Sino Biological Recombinant Proteins Browse Sino Biological Cell Lysates
	Browse ProSpec Recombinant Proteins
	Cloud-Clone Corp. Proteins for LHX6

LHX6 Antibody Products:

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	Novus Biologicals LHX6 Antibodies
	Abcam antibodies for LHX6
	Cloud-Clone Corp. Antibodies for LHX6
	ThermoFisher Antibodies for LHX6
	LSBio Antibodies in human, mouse, rat for LHX6

LHX6 Assay Products:

	Browse Kits and Assays available from EMD Millipore
	OriGene Custom Assay Services for LHX6
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	GenScript Custom Assay Services for LHX6
	Browse Enzo Life Sciences for kits & assays
	Cloud-Clone Corp. ELISAs for LHX6 Cloud-Clone Corp. CLIAs for LHX6

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:

LIM: Homeoboxes / LIM class

4 InterPro protein domains:

IPR001781 Znf_LIM

IPR017970 Homeobox_CS

IPR001356 Homeobox_dom

IPR009057 Homeodomain-like

Graphical View of Domain Structure for InterPro Entry Q9UPM6

ProtoNet protein and cluster: Q9UPM6

1 Blocks protein domain: IPB001781 Zn-binding protein

UniProtKB/Swiss-Prot: LHX6_HUMAN, Q9UPM6

Similarity: Contains 1 homeobox DNA-binding domain

Similarity: Contains 2 LIM zinc-binding domains

LHX6 for domains About GeneDecksing

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

UniProtKB/Swiss-Prot Summary: LHX6_HUMAN, Q9UPM6

Function: Probable transcription factor required for the expression of a subset of genes involved in interneurons

migration and development. Functions in the specification of cortical interneuron subtypes and in the migration

of GABAergic interneuron precursors from the subpallium to the cerebral cortex (By similarity)

Gene Ontology (GO): 5 molecular function terms: About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003677	DNA binding	--	--
GO:0003700	sequence-specific DNA binding transcription factor activity	NAS	10393337
GO:0005515	protein binding	--	--
GO:0008270	zinc ion binding	IEA	--
GO:0043565	sequence-specific DNA binding	IEA	--

LHX6 for ontologies About GeneDecksing

Phenotypes:
6 MGI mutant phenotypes (inferred from 4 alleles) (MGI details for Lhx6):

behavior/neurological	cellular	mortality/aging	nervous system	no phenotypic analysis
normal

LHX6 for phenotypes About GeneDecksing

Animal Models:
MGI mouse knock-out Lhx6^tm2Vpa for LHX6

inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for LHX6

inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for LHX6

genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for LHX6

genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for LHX6

miRNA Products:		miRTarBase miRNAs that target LHX6: hsa-mir-26b-5p (MIRT028799), hsa-mir-335-5p (MIRT016904)

		Block miRNA regulation of human, mouse, rat LHX6 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate LHX6 (see all 104):
		hsa-miR-411* hsa-miR-100* hsa-miR-3194-5p hsa-miR-520e hsa-miR-520f hsa-miR-106a hsa-miR-218-1* hsa-miR-200a

		SwitchGear 3'UTR luciferase reporter plasmid: LHX6 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for LHX6
		Predesigned siRNA for gene silencing in human, mouse, rat LHX6

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for LHX6

Clone Products:		OriGene clones in human, mouse for LHX6 (see all 12) OriGene ORF clones in mouse, rat for LHX6 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 2): LHX6 (NM_014368)
		Sino Biological Human cDNA Clone for LHX6
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for LHX6
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LHX6

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for LHX6
		Browse ESI BIO Cell Lines and PureStem Progenitors for LHX6

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LHX6

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot

LHX6_HUMAN, Q9UPM6: Nucleus (Probable)

Subcellular locations from COMPARTMENTS:

Compartment	Confidence
nucleus	4

About this image

Gene Ontology (GO): 1 cellular component term: About this table

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

LHX6 for ontologies About GeneDecksing

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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Custom Pathway & Disease-focused RT² Profiler PCR Arrays for LHX6
Interactions:

Search GeneGlobe Interaction Network for LHX6

STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

Selected Interacting proteins for LHX6 (ENSP00000377854⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 6)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
LHX9	ENSP00000356357⁴	STRING: ENSP00000356357
LDB1	ENSP00000392466⁴	STRING: ENSP00000392466
LDB2	ENSP00000306772⁴	STRING: ENSP00000306772
LHX3	ENSP00000360811⁴	STRING: ENSP00000360811
LHX4	ENSP00000263726⁴	STRING: ENSP00000263726

About this table

Gene Ontology (GO): Selected biological process terms (see all 9): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006351	transcription, DNA-templated	IEA	--
GO:0006355	regulation of transcription, DNA-templated	--	--
GO:0021799	cerebral cortex radially oriented cell migration	ISS	--
GO:0021800	cerebral cortex tangential migration	ISS	--
GO:0021853	cerebral cortex GABAergic interneuron migration	ISS	--

LHX6 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse compounds at ApexBio

Browse Tocris compounds for LHX6

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for LHX6 gene (5 alternative transcripts):

NM_001242333.1 NM_001242334.1 NM_001242335.1 NM_014368.4 NM_199160.3

Unigene Cluster for LHX6:

LIM homeobox 6

Hs.103137 [show with all ESTs]

Unigene Representative Sequence: NM_001242335

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

ENST00000373755(uc010mvw.3) ENST00000373754(uc022bmx.1) ENST00000340587(uc004bly.4)

ENST00000394319(uc004blx.4) ENST00000559895(uc022bmw.1) ENST00000541397

ENST00000464484 ENST00000482062 ENST00000558672 ENST00000560152 ENST00000560485

ENST00000559529

miRNA Products:		Block miRNA regulation of human, mouse, rat LHX6 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate LHX6 (see all 104):
		hsa-miR-411* hsa-miR-100* hsa-miR-3194-5p hsa-miR-520e hsa-miR-520f hsa-miR-106a hsa-miR-218-1* hsa-miR-200a

		SwitchGear 3'UTR luciferase reporter plasmid: LHX6 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for LHX6
		Predesigned siRNA for gene silencing in human, mouse, rat LHX6

Clone Products:		OriGene clones in human, mouse for LHX6 (see all 12) OriGene ORF clones in mouse, rat for LHX6 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 2): LHX6 (NM_014368)
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for LHX6
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LHX6

Primer Products:		OriGene qSTAR qPCR primer pairs in human, mouse for LHX6
		Pre-validated RT² qPCR Primer Assay in human, mouse, rat LHX6
		QuantiTect SYBR Green Assays in human, mouse, rat LHX6
		QuantiFast Probe-based Assays in human, mouse, rat LHX6

Additional mRNA sequence:

AB031041.1 AB031042.1 AK126982.1 AK289827.1 AK297175.1 AK299709.1 AK313808.1 AL136570.1

BC103936.1 BC103937.1 BC103938.1

10 DOTS entries:

DT.412600 DT.97811234 DT.99992081 DT.121209120 DT.121209122 DT.40262865 DT.95364250 DT.121209119

DT.121209123 DT.121209172

Selected AceView cDNA sequences (see all 50):

AK126982 BQ003604 NM_199160 BU540587 BX089771 W61009 AA136365 AI186377

AI265821 AA128312 NM_014368 AL136570 AW662166 AW629363 AI279977 BM450588

BV200799 BE280401 AB031042 BI251909 BQ575483 BI913711 BM826954 BM048794

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for LHX6 (see all 9) About this scheme

ExUns:	1	^	2	^	3	^	4a	·	4b	^	5a	·	5b	^	6a	·	6b	^	7	^	8	^	9a	·	9b	·	9c	^	10a	·	10b	·	10c	^	11	^	12a	·	12b	·	12c	^	13	^	14a	·	14b	·	14c	·	14d
SP1:											-				-				-		-								-								-		-
SP2:											-				-				-		-								-								-		-				-
SP3:																					-								-								-		-
SP4:
SP5:

ECgene alternative splicing isoforms for LHX6

(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™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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LHX6 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: TCGTGCTTTG

About this image

LHX6 expression in embryonic tissues and stem cells About this table

Data from LifeMap, the Embryonic Development and Stem Cells Database
selected tissues (see all 8) fully expand


Brain (Nervous System) fully expand to see all 6 entries
Medial Ganglionic Eminence Progenitor Cells Medial Ganglionic Eminence
Cerebellum

Neural Tube (Nervous System) fully expand to see all 4 entries
Medial Ganglionic Eminence Progenitor Cells Medial Ganglionic Eminence

Head Mesenchyme (Muscoskeletal System) fully expand to see all 2 entries
Cranial Neural Crest Cells Branchial Arch 1

Neural Crest (Gastrulation Derivatives)
Cranial Neural Crest Cells Branchial Arch 1

Tooth
Dental Follicle Cells Dental Papilla

LHX6 Protein expression data from MOPED¹, PaxDb² and MaxQB³:

About this image

LHX6 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.103137

Custom PCR Arrays for LHX6

Primer Products:		OriGene qSTAR qPCR primer pairs in human, mouse for LHX6
		Pre-validated RT² qPCR Primer Assay in human, mouse, rat LHX6
		QuantiTect SYBR Green Assays in human, mouse, rat LHX6
		QuantiFast Probe-based Assays in human, mouse, rat LHX6

In Situ
Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LHX6

(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)
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This gene was present in the common ancestor of animals.

Orthologs for LHX6 gene from Selected species (see all 14) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Details
mouse (Mus musculus)	Mammalia	Lhx6^{1 , 5}	LIM homeobox protein 6^{1, 5}	92.35(n)¹ 97.96(a)¹	2 (24.17 cM)⁵ 16874¹ NM_008500.2¹ NP_032526.2¹ 36081950⁵
chicken (Gallus gallus)	Aves	LHX6¹	LIM homeobox 6	73.67(n) 77.36(a)	772259 XM_001235420.3 XP_001235421.3
tropical clawed frog (Xenopus tropicalis)	Amphibia	lhx6¹	LIM homeobox 6	71.89(n) 82.52(a)	100493242 XM_002941138.2 XP_002941184.1
zebrafish (Danio rerio)	Actinopterygii	lhx6¹	LIM homeobox 6	72.84(n) 79.37(a)	445565 NM_001004015.2 NP_001004015.1
fruit fly (Drosophila melanogaster)	Insecta	Awh³	transcription factor	48(a)	63F4 --
worm (Caenorhabditis elegans)	Secernentea	lim-4³	LIM-homeodomain	44(a)	X(3905023-3905852) --

ENSEMBL Gene Tree for LHX6 (if available)
TreeFam Gene Tree for LHX6 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
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Paralogs for LHX6 gene

ISL1² LHX2² LHX9² LMX1B² LHX5² LHX1² LMX1A² LHX4²

LHX3² LHX8² ISL2²

14 SIMAP similar genes for LHX6 using alignment to 5 protein entries: LHX6_HUMAN (see all proteins):

LHX8 LHX4 Lhx8 LHx4 LMO1 LHX3

LMO4 LHX1 LMO3 POU6F1 ISL1 ISL2

LMO2 LHX9

LHX6 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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SNP ID	Valid	Clinical significance	Chr 9 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs113402824^1,2	C,F	--	124970985(+)	`GTAGGT/CGCCTG`	5	--	int¹		1		CSA	1
rs34355404^1,2	C	--	124971114(+)	`TGTCT-/AAAAAA`	5	--	int¹		1		NA	2
rs60428182^1,2	C	--	124974376(+)	`TACTT-/TATGCG`	5	--	int¹		0	--	--	--	--
rs80276047^1,2	C,F	--	124976235(+)	`CCCCAC/TCCTCT`	5	--	int¹		1		WA	118
rs186059631^1,2		--	124976267(+)	`TCTCAC/TCTGAT`	5	--	int¹		0	--	--	--	--
rs189781154^1,2		--	124976335(+)	`CTCCTC/TCAGGA`	5	--	int¹		0	--	--	--	--
rs73553356^1,2	C,F	--	124976343(+)	`GGACAA/GGGTCT`	5	--	int¹		3		WA CSA	122
rs139462391^1,2		--	124976573(+)	`TACACC/TGTCCA`	5	--	int¹		0	--	--	--	--
rs181219356^1,2		--	124976610(+)	`GACCTA/TAGCCC`	5	--	int¹		0	--	--	--	--
rs79457316^1,2		--	124976733(+)	`TGAAAG/TGTATG`	5	--	ut3¹		1		EA	120

HapMap Linkage Disequilibrium report for LHX6 (124964856 - 124991905 bp)

Structural Variations
Database of Genomic Variants (DGV) 2 variations for LHX6: About this table

Variant ID	Type	Subtype	PubMed ID
dgv8280n71	CNV	Loss	21882294
nsv831715	CNV	Gain	17160897

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing LHX6

DNA2.0 Custom Variant and Variant Library Synthesis for LHX6

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 608215 OMIM disorders: --

6 diseases for LHX6:
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cervix uteri carcinoma in situ cervical cancer cervicitis cerebritis

neuronitis endotheliitis

LHX6 for disorders About GeneDecksing

Genetic Association Database (GAD): LHX6
Human Genome Epidemiology (HuGE) Navigator: LHX6 (2 documents)

Export disorders for LHX6 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)
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PubMed articles for LHX6 gene, integrated from 10 sources (see all 20):
(articles sorted by number of sources associating them with LHX6)

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A brain region-specific gene product Lhx6.1 interacts with Ldb1 through tandem LIM-domains. (PubMed id 10393337)^{1, 2, 3, 9} Kimura N.... Taga T. (J. Biochem. 1999)
Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)^{1, 4} Rose J.E....Uhl G.R. (Mol. Med. 2010)
Human variation in alcohol response is influenced by variation in neuronal signaling genes. (PubMed id 20201926)^{1, 4} Joslyn G....White R.L. (Alcohol. Clin. Exp. Res. 2010)
DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)^{1, 2} Humphray S.J.... Dunham I. (Nature 2004)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S.... Malek J. (Genome Res. 2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (Nat. Genet. 2004)
Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)^{1, 2} Wiemann S.... Poustka A. (Genome Res. 2001)
LHX6 acts as a novel potential tumour suppressor with epigenetic inactivation in lung cancer. (PubMed id 24157876)¹ Liu W.B....Liu J.Y. (amp 2013)
The LIM homeodomain transcription factor LHX6: a transcriptional repressor that interacts with pituitary homeobox 2 (PITX2) to regulate odontogenesis. (PubMed id 23229549)¹ Zhang Z....Amendt B.A. (J. Biol. Chem. 2013)
Evaluation of the LIM homeobox genes LHX6 and LHX8 as candidates for Tourette syndrome. (PubMed id 22435649)¹ Paschou P....Grigoriou M. (Genes Brain Behav. 2012)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 26468	HGNC: 21735	AceView: LHX6	Ensembl:ENSG00000106852	euGenes: HUgn26468
ECgene: LHX6	H-InvDB: LHX6

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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Name	Description
PharmGKB entry for LHX6	Pharmacogenomics, SNPs, Pathways

Intellectual Property for LHX6 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for LHX6 gene:
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LHX6 Gene

LIM Homeobox 6

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