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LHX6 Gene

protein-coding   GIFtS: 52
GCID: GC09M124964

LIM Homeobox 6

  See related diseases
at  

(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 plasmidLHX6 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, Cloud-Clone Corp, and/or others.)
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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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    Cloud-Clone Corp. Proteins for LHX6

    LHX6 Antibody Products:

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    LHX6 Assay Products:

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    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 IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ----
    GO:0003700sequence-specific DNA binding transcription factor activity NAS10393337
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
    GO:0043565sequence-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 Lhx6tm2Vpa 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
    104 qRT-PCR Assays for microRNAs that regulate LHX6 (see first 8):
    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
    hsa-miR-759 hsa-miR-93 hsa-miR-3613-3p hsa-miR-489 hsa-miR-556-3p hsa-miR-761 hsa-miR-520b hsa-miR-20a
    hsa-miR-1266 hsa-miR-3688-3p hsa-miR-324-3p hsa-miR-4297 hsa-miR-323b-5p hsa-miR-373 hsa-miR-138-1* hsa-miR-942
    hsa-miR-3191 hsa-miR-548t hsa-miR-520c-3p hsa-miR-466 hsa-miR-380 hsa-miR-339-5p hsa-miR-4260 hsa-miR-520a-3p
    hsa-miR-129-3p hsa-miR-33b hsa-miR-129* hsa-miR-1299 hsa-miR-17 hsa-miR-516b hsa-miR-922 hsa-miR-302a
    hsa-miR-4268 hsa-miR-106b hsa-miR-3617 hsa-miR-130b* hsa-miR-524-5p hsa-miR-296-3p hsa-miR-543 hsa-miR-3714
    hsa-miR-4291 hsa-miR-302d hsa-miR-379* hsa-miR-488 hsa-miR-346 hsa-miR-570 hsa-miR-548m hsa-miR-141
    hsa-miR-183* hsa-miR-649 hsa-miR-372 hsa-miR-330-3p hsa-miR-1183 hsa-miR-302b hsa-miR-526b* hsa-miR-3144-5p
    hsa-miR-3163 hsa-miR-1261 hsa-miR-1324 hsa-miR-1236 hsa-miR-4282 hsa-miR-188-3p hsa-miR-3681 hsa-miR-593
    hsa-miR-302c hsa-miR-3202 hsa-miR-194 hsa-miR-495 hsa-miR-520d-5p hsa-miR-218-2* hsa-miR-2110 hsa-miR-1271
    hsa-miR-1285 hsa-miR-302e hsa-miR-520a-5p hsa-miR-3150a-3p hsa-miR-4298 hsa-miR-1302 hsa-miR-641 hsa-miR-7-1*
    hsa-miR-205* hsa-miR-3143 hsa-miR-3121-3p hsa-miR-520d-3p hsa-miR-3941 hsa-miR-96 hsa-miR-519d hsa-miR-7-2*
    hsa-miR-26b* hsa-miR-3907 hsa-miR-33a hsa-miR-504 hsa-miR-214 hsa-miR-612 hsa-miR-525-5p hsa-miR-20b
    SwitchGear 3'UTR luciferase reporter plasmidLHX6 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat LHX6

    Gene Editing
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    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

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    In Situ Assay
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    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: 

    CompartmentConfidence
    nucleus4

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus 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)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LHX9ENSP000003563574STRING: ENSP00000356357
    LDB1ENSP000003924664STRING: ENSP00000392466
    LDB2ENSP000003067724STRING: ENSP00000306772
    LHX3ENSP000003608114STRING: ENSP00000360811
    LHX4ENSP000002637264STRING: ENSP00000263726
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated ----
    GO:0021799cerebral cortex radially oriented cell migration ISS--
    GO:0021800cerebral cortex tangential migration ISS--
    GO:0021853cerebral 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,
    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
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    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 plasmidLHX6 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat LHX6
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    GenScript: all cDNA clones in your preferred vector (see all 2): LHX6 (NM_014368)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LHX6
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      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
    LHX6 Expression
    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
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    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
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lhx61 , 5 LIM homeobox protein 61, 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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    Selected SNPs for LHX6 (see all 489)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1134028241,2
    C,F--124970985(+) GTAGGT/CGCCTG 5 -- int11Minor allele frequency- C:0.00CSA 1
    rs343554041,2
    C--124971114(+) TGTCT-/AAAAAA 5 -- int11Minor allele frequency- A:0.50NA 2
    rs604281821,2
    C--124974376(+) TACTT-/TATGCG 5 -- int10--------
    rs802760471,2
    C,F--124976235(+) CCCCAC/TCCTCT 5 -- int11Minor allele frequency- T:0.09WA 118
    rs1860596311,2
    --124976267(+) TCTCAC/TCTGAT 5 -- int10--------
    rs1897811541,2
    --124976335(+) CTCCTC/TCAGGA 5 -- int10--------
    rs735533561,2
    C,F--124976343(+) GGACAA/GGGTCT 5 -- int13Minor allele frequency- G:0.15WA CSA 122
    rs1394623911,2
    --124976573(+) TACACC/TGTCCA 5 -- int10--------
    rs1812193561,2
    --124976610(+) GACCTA/TAGCCC 5 -- int10--------
    rs794573161,2
    --124976733(+) TGAAAG/TGTATG 5 -- ut311Minor allele frequency- T:0.01EA 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 IDTypeSubtypePubMed ID
    dgv8280n71CNV Loss21882294
    nsv831715CNV Gain17160897

    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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 608215    OMIM disorders: --

    6 diseases for LHX6:    
    About MalaCards
    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)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. 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)
    3. 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)
    4. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)1, 2 Humphray S.J.... Dunham I. (Nature 2004)
    5. 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)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    7. 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)
    8. 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)
    9. 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)
    10. 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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     ANDOR
    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)
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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)
    About This Section

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    NameDescription
    PharmGKB entry for LHX6 Pharmacogenomics, SNPs, Pathways

    (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:
    Search GeneIP for patents involving LHX6

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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