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ARMC6 Gene

protein-coding   GIFtS: 50
GCID: GC19P019144

Armadillo Repeat Containing 6

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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
Armadillo Repeat Containing 61 2
R30923_12
Armadillo Repeat-Containing Protein 62

External Ids:    HGNC: 250491   Entrez Gene: 934362   Ensembl: ENSG000001056767   UniProtKB: Q6NXE63   

Export aliases for ARMC6 gene to outside databases

Previous GC identifers: GC19P019006 GC19P018708


(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 ARMC6 Gene:
The function of this gene's protein product has not been determined. A related protein in mouse suggests that this
protein has a conserved function. Two transcript variants encoding different isoforms have been found for this
gene. (provided by RefSeq, Nov 2010)

GeneCards Summary for ARMC6 Gene:
ARMC6 (armadillo repeat containing 6) is a protein-coding gene.

Gene Wiki entry for ARMC6 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 at NCBI GenBank:
NC_000019.9  NT_011295.12  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ARMC6 gene promoter:
         NF-1/L   NF-1   Pax-5   GCNF   IRF-1   Gfi-1   YY1   C/EBPalpha   GCNF-1   GCNF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidARMC6 promoter sequence
   Search Chromatin IP Primers for ARMC6

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ARMC6


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

Entrez Gene cytogenetic band: 19p13.11   Ensembl cytogenetic band:  19p13.11   HGNC cytogenetic band: 19p13

ARMC6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ARMC6 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P019144:  view genomic region     (about GC identifiers)

Start:
19,144,384 bp from pter      End:
19,170,563 bp from pter
Size:
26,180 bases      Orientation:
plus 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: ARMC6_HUMAN, Q6NXE6 (See protein sequence)
Recommended Name: Armadillo repeat-containing protein 6  
Size: 501 amino acids; 54142 Da
Caution: It is uncertain whether Met-1 or Met-26 is the initiator
Sequence caution: Sequence=AAD03162.1; Type=Erroneous gene model prediction; Sequence=AAH67125.1; Type=Erroneous
initiation; Note=Translation N-terminally extended;
Secondary accessions: B4DI98 O94999 Q9BTH5
Alternative splicing: 2 isoforms:  Q6NXE6-1   Q6NXE6-2   (Gene prediction based on EST data)

Explore the universe of human proteins at neXtProt for ARMC6: NX_Q6NXE6

Explore proteomics data for ARMC6 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys125, Lys134, Lys208, Lys274, Lys284, Lys345, Lys361, Lys422, Lys432, Lys450
  • Modification sites at PhosphoSitePlus

  • See ARMC6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001186125.1  NP_219483.1  

    ENSEMBL proteins: 
     ENSP00000376147   ENSP00000444156   ENSP00000441948   ENSP00000442263   ENSP00000446209  
     ENSP00000269932   ENSP00000444341   ENSP00000439269   ENSP00000439038   ENSP00000446037  
     ENSP00000441420   ENSP00000439003   ENSP00000444317   ENSP00000437580   ENSP00000438369  
     ENSP00000376148   ENSP00000444916   ENSP00000446234   ENSP00000444265   ENSP00000443719  

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    Cloud-Clone Corp. Proteins for ARMC6

     
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    antibodies-online proteins for ARMC6 (2 products) 

     
    antibodies-online peptides for ARMC6

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

    3 InterPro protein domains:
     IPR011989 ARM-like
     IPR000225 Armadillo
     IPR016024 ARM-type_fold

    Graphical View of Domain Structure for InterPro Entry Q6NXE6

    ProtoNet protein and cluster: Q6NXE6

    1 Blocks protein domain: IPB000225 Armadillo repeat

    UniProtKB/Swiss-Prot: ARMC6_HUMAN, Q6NXE6
    Similarity: Belongs to the ARMC6 family
    Similarity: Contains 4 ARM repeats


    Find genes that share domains with ARMC6           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005488binding ----
    GO:0005515protein binding ----
         
    Find genes that share ontologies with ARMC6           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for ARMC6

    miRNA
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    miRTarBase miRNAs that target ARMC6:
    hsa-mir-484 (MIRT042037)

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    SwitchGear 3'UTR luciferase reporter plasmidARMC6 3' UTR sequence
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    (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 COMPARTMENTS: 

    CompartmentConfidence
    cytosol2

    (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 ARMC6
    Interactions:

        Search GeneGlobe Interaction Network for ARMC6

    STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

    Selected Interacting proteins for ARMC6 (Q6NXE63 ENSP000002699324) via UniProtKB, MINT, STRING, and/or I2D (see all 15)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    AP1S1P619663, ENSP000003366664I2D: score=2 STRING: ENSP00000336666
    STK36Q9NRP73, ENSP000002957094I2D: score=2 STRING: ENSP00000295709
    WRAP73Q9P2S53, ENSP000002707084I2D: score=2 STRING: ENSP00000270708
    PSMD6Q150083, ENSP000002959014I2D: score=1 STRING: ENSP00000295901
    SAP18O004223, ENSP000003719734I2D: score=1 STRING: ENSP00000371973
    About this table

    (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 ARMC6



    (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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for ARMC6 gene (2 alternative transcripts): 
    NM_001199196.1  NM_033415.3  

    Unigene Cluster for ARMC6:

    Armadillo repeat containing 6
    Hs.77876  [show with all ESTs]
    Unigene Representative Sequence: NM_001199196
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 20):
    ENST00000392335(uc002nlc.3) ENST00000535612(uc002nld.3 uc010xqm.2)
    ENST00000537263 ENST00000540707 ENST00000541725 ENST00000269932 ENST00000546344(uc010xql.2)
    ENST00000540792 ENST00000536098 ENST00000541898 ENST00000539985 ENST00000543877
    ENST00000545091 ENST00000535288 ENST00000538663 ENST00000392336 ENST00000535758
    ENST00000535478
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    Inhib. RNA
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    Additional mRNA sequence: 

    AK295488.1 AK303914.1 BC003700.1 BC056161.1 BC067125.1 BX648486.1 CR749678.1 Z36779.1 

    17 DOTS entries:

    DT.444151  DT.100812701  DT.91770965  DT.91770971  DT.95347755  DT.95327921  DT.100682839  DT.95347758 
    DT.95302583  DT.121472250  DT.100812688  DT.100812690  DT.100812692  DT.97847966  DT.86857160  DT.100812695 
    DT.95356501 

    Selected AceView cDNA sequences (see all 317):

    BC067125 AL556156 AI312525 BQ959051 AI589549 BI761702 BX648486 BU194051 
    BM021391 AI675172 BU624436 BQ938856 NM_033415 BQ229709 BQ637345 BC056161 
    BG335225 CB150509 BQ045265 BM788742 BI823368 H92780 BQ012036 BI918170 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ARMC6 (see all 9)    About this scheme

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

    ExUns: 12b
    SP1:      
    SP2:      
    SP3:      
    SP4:      
    SP5:      


    ECgene alternative splicing isoforms for ARMC6

    (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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    ARMC6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGGCCTCTG
    ARMC6 Expression
    About this image

    ARMC6 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ARMC6 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.77876
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    In Situ
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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)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for ARMC6 gene from Selected species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Armc61 , 5 armadillo repeat containing 61, 5 81.3(n)1
    83.94(a)1
      8 (34.15 cM)5
    768131  NM_133972.21  NP_598733.21 
     702201725 
    chicken
    (Gallus gallus)
    Aves ARMC61 armadillo repeat containing 6 67.37(n)
    65.4(a)
      420112  XM_001233054.3  XP_001233055.1 
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.204872 Xenopus laevis transcribed sequence with weak similarity more 72.18(n)    CD360558.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5554251 armadillo repeat-containing protein 6-like 64.52(n)
    63.44(a)
      555425  XM_677924.6  XP_683016.6 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG57211 CG5721 47.11(n)
    34.89(a)
      37084  NM_137462.4  NP_611306.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G339451 AT4G33945 39.53(n)
    29.02(a)
      829540  NM_119555.3  NP_567944.1 
    rice
    (Oryza sativa)
    Liliopsida Os02g07612001 Os02g0761200 40.67(n)
    29.25(a)
      4330807  NM_001054730.1  NP_001048195.1 


    ENSEMBL Gene Tree for ARMC6 (if available)
    TreeFam Gene Tree for ARMC6 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ARMC6 gene
    6 SIMAP similar genes for ARMC6 using alignment to 17 protein entries:     ARMC6_HUMAN (see all proteins):
    DKFZp762A1314    RTBDN    APOPT1    ZNF554    ZNF547    VPS45

    Find genes that share paralogs with ARMC6           About GenesLikeMe



    (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 ARMC6 (see all 552)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1828399201,2
    --19146419(+) TCAGTC/TAGCTC 2 -- int10--------
    rs1889364771,2
    C--19146505(+) AGGCAA/GCCACC 2 -- int10--------
    rs347504021,2
    C,F--19146577(+) AATCAA/G/TTTAGA 2 -- int12NA 4
    rs2012844601,2
    --19146577(+) ATCAG-/TTTAGA 2 -- int10--------
    rs1995330871,2
    --19146580(+) CAGTT-/AGAA  
            
    AGCTT
    2 -- int10--------
    rs730089281,2
    C,F--19146729(+) GGTCAC/TAGGTA 2 -- int12Minor allele frequency- T:0.07NA 122
    rs1181040251,2
    C,F--19146732(+) CACAGG/TTAGAG 2 -- int11Minor allele frequency- T:0.02NA 120
    rs81061461,2
    C,F,H--19146750(+) attgcG/Tttctt 2 -- int117Minor allele frequency- T:0.20NS EA NA WA CSA 636
    rs1492751171,2
    --19146788(+) ATACAC/TGATTT 2 -- int10--------
    rs1504683181,2
    C--19146866(+) TGTTT-/GCTTGT 2 -- int10--------

    HapMap Linkage Disequilibrium report for ARMC6 (19144384 - 19170563 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for ARMC6:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv833779CNV Loss17160897
    nsv833778CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ARMC6
    DNA2.0 Custom Variant and Variant Library Synthesis for ARMC6

    (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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      --

    (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 ARMC6 gene, integrated from 10 sources (see all 21):
    (articles sorted by number of sources associating them with ARMC6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)1, 2 Grimwood J.... Lucas S.M. (Nature 2004)
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    4. Drafting the CLN3 protein interactome in SH-SY5Y human neuroblastoma cells: a label-free quantitative proteomics approach. (PubMed id 23464991)1 Scifo E....Lalowski M. (J. Proteome Res. 2013)
    5. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    6. The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (J. Cell. Sci. 2012)
    7. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)
    8. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    9. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    10. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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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: 93436 HGNC: 25049 AceView: ARMC6 Ensembl:ENSG00000105676 euGenes: HUgn93436
    ECgene: ARMC6 H-InvDB: ARMC6

    (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 ARMC6 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 ARMC6 gene:
    Search GeneIP for patents involving ARMC6

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



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