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TRANK1 Gene

protein-coding   GIFtS: 43
GCID: GC03M036845

Tetratricopeptide Repeat And Ankyrin Repeat Containing 1

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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
Tetratricopeptide Repeat And Ankyrin Repeat Containing 11 2
KIAA03421 3
Lupus Brain Antigen 1 Homolog2 3
LBA12 3
Lupus Brain Antigen 11
TPR And Ankyrin Repeat-Containing Protein 12

External Ids:    HGNC: 290111   Entrez Gene: 98812   Ensembl: ENSG000001680167   UniProtKB: O150503   

Export aliases for TRANK1 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TRANK1 Gene:
TRANK1 (tetratricopeptide repeat and ankyrin repeat containing 1) is a protein-coding gene. GO annotations related to this gene include hydrolase activity.


(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_000003.11  NT_022517.19  NC_018914.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for TRANK1
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for TRANK1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRANK1


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

Entrez Gene cytogenetic band: 3p22.2   Ensembl cytogenetic band:  3p22.2   HGNC cytogenetic band: 3p22.2

TRANK1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRANK1 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M036845:  view genomic region     (about GC identifiers)

Start:
36,868,308 bp from pter      End:
36,986,548 bp from pter
Size:
118,241 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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: TRNK1_HUMAN, O15050 (See protein sequence)
Recommended Name: TPR and ankyrin repeat-containing protein 1  
Size: 2925 amino acids; 336221 Da
Sequence caution: Sequence=BAC04838.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: Q8N8K0

Explore the universe of human proteins at neXtProt for TRANK1: NX_O15050

Explore proteomics data for TRANK1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TRANK1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_055646.2  
    ENSEMBL proteins: 
     ENSP00000416826   ENSP00000416168   ENSP00000301807  

    TRANK1 Human Recombinant Protein Products:

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    Browse Proteins at Cloud-Clone Corp.

     
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    Search eBioscience for ELISAs for TRANK1 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    ANKRD: Ankyrin repeat domain containing
    TTC: Tetratricopeptide (TTC) repeat domain containing

    Selected InterPro protein domains (see all 7):
     IPR011990 TPR-like_helical
     IPR014016 UvrD-like_ATP-bd
     IPR027417 P-loop_NTPase
     IPR014017 DNA_helicase_UvrD-like_C
     IPR020683 Ankyrin_rpt-contain_dom

    Graphical View of Domain Structure for InterPro Entry O15050

    ProtoNet protein and cluster: O15050

    1 Blocks protein domain: IPB000515 Binding-protein-dependent transport systems inner membrane component

    UniProtKB/Swiss-Prot: TRNK1_HUMAN, O15050
    Similarity: Contains 6 ANK repeats
    Similarity: Contains 4 TPR repeats


    Find genes that share domains with TRANK1           About GenesLikeMe


    (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, 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): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0005524ATP binding IEA--
    GO:0016787hydrolase activity IEA--
         
    Find genes that share ontologies with TRANK1           About GenesLikeMe


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TRANK1
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    miRTarBase miRNAs that target TRANK1:
    hsa-mir-335-5p (MIRT018157), hsa-mir-26b-5p (MIRT029736)

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    Selected qRT-PCR Assays for microRNAs that regulate TRANK1 (see all 47):
    hsa-let-7d hsa-miR-15a hsa-miR-449a hsa-miR-374c hsa-let-7g hsa-miR-424 hsa-let-7a hsa-miR-15b
    Browse SwitchGear 3'UTR luciferase reporter plasmids
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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
    nucleus3
    cytosol2
    golgi apparatus1

    (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 TRANK1
    Interactions:

        Search GeneGlobe Interaction Network for TRANK1

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for TRANK1 (ENSP000003018074) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CBX2ENSP000003087504STRING: ENSP00000308750
    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 TRANK1 (TRNK1)



    (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 TRANK1 gene: 
    NM_014831.2  

    Unigene Cluster for TRANK1:

    Tetratricopeptide repeat and ankyrin repeat containing 1
    Hs.170999  [show with all ESTs]
    Unigene Representative Sequence: NM_014831
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000428977 ENST00000463984 ENST00000513141 ENST00000505962 ENST00000463764
    ENST00000511973 ENST00000429976 ENST00000301807(uc003cgj.3)
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate TRANK1 (see all 47):
    hsa-let-7d hsa-miR-15a hsa-miR-449a hsa-miR-374c hsa-let-7g hsa-miR-424 hsa-let-7a hsa-miR-15b
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TRANK1
      QuantiTect SYBR Green Assays in human, mouse, rat TRANK1
      QuantiFast Probe-based Assays in human, mouse, rat TRANK1

    Additional mRNA sequence: 

    AB002340.3 AK096678.1 

    4 DOTS entries:

    DT.97776499  DT.120859625  DT.40301196  DT.97800817 

    Selected AceView cDNA sequences (see all 278):

    AW505091 BQ056618 BQ064128 AI702802 BQ066687 BQ056917 CA307101 BQ062307 
    BQ063240 BM564026 BQ060877 BQ024165 BQ058918 BG214347 AI925555 BQ059511 
    BQ063413 AI744282 AA738434 BE836761 CD673149 BQ956036 BQ061030 BX506234 

    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™, 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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    TRANK1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTGCTTGTTG
    TRANK1 Expression
    About this image


    TRANK1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 4) fully expand
     
     Neural Tube (Nervous System)    fully expand to see all 4 entries
             Metencephalon
     
     Testis (Reproductive System)
             Pre-Sertoli Cells Testis Cord
     
     Brain (Nervous System)
             Medulla Oblongata
     
     Lymph (Hematopoietic System)
    TRANK1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TRANK1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.170999
        Custom PCR Arrays for TRANK1
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRANK1

    (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 chordates.

    Orthologs for TRANK1 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trank11 , 5 tetratricopeptide repeat and ankyrin repeat containing more1, 5 84.12(n)1
    83.83(a)1
      9 (60.95 cM)5
    3204291  NM_001164659.11  NP_001158131.11 
     1113117395 
    chicken
    (Gallus gallus)
    Aves TRANK11 tetratricopeptide repeat and ankyrin repeat containing more 63.26(n)
    59.37(a)
      420728  XM_418827.4  XP_418827.4 
    lizard
    (Anolis carolinensis)
    Reptilia TRANK16
    tetratricopeptide repeat and ankyrin repeat contai...
    55(a)
    1 ↔ 1
    6(43523882-43621953)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia trank11 tetratricopeptide repeat and ankyrin repeat containing more 56.2(n)
    49.67(a)
      100493537  XM_002933422.2  XP_002933468.2 


    ENSEMBL Gene Tree for TRANK1 (if available)
    TreeFam Gene Tree for TRANK1 (if available)

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

    (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 TRANK1 (see all 2548)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1830081611,2
    --36867936(+) TTGAAC/TAGACC 1 -- int10--------
    rs1482062471,2
    --36868060(+) CAAAAC/TTCCTT 1 -- int10--------
    rs1159861801,2
    F--36868097(+) GCATCC/TAGATT 1 -- int11Minor allele frequency- T:0.03WA 118
    rs774857561,2
    C,F--36868175(+) TCTCTA/GTCCCT 1 -- int11Minor allele frequency- G:0.07WA 118
    rs1857739271,2
    --36868229(+) CAGCAC/TCAATC 1 -- int10--------
    rs1902876391,2
    --36868290(+) AGACTA/GGAAAT 1 -- int10--------
    rs1411457331,2
    --36868300(+) TAAAAC/TGGCAG 1 -- int10--------
    rs1509143321,2
    --36868301(+) AAAACA/GGCAGC 1 -- int10--------
    rs75141,2
    C,F--36868368(-) AGAAAA/CCCCCA 1 -- ut31 trp33Minor allele frequency- C:0.13WA NA 122
    rs1384673691,2
    C--36868527(+) AACATA/GGGGGG 1 -- ut310--------

    HapMap Linkage Disequilibrium report for TRANK1 (36868308 - 36986548 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for TRANK1:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2725156CNV Deletion23290073
    esv1503716CNV Insertion17803354
    nsv3762CNV Insertion18451855
    nsv834662CNV Loss17160897
    nsv834660CNV Loss17160897
    nsv834661CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TRANK1
    DNA2.0 Custom Variant and Variant Library Synthesis for TRANK1

    (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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    Find genes that share disorders with TRANK1           About GenesLikeMe

    Genetic Association Database (GAD): TRANK1

    Export disorders for TRANK1 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 TRANK1 gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with TRANK1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9205841)1, 2, 3 Nagase T.... Ohara O. (DNA Res. 1997)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Genome-wide association study meta-analysis of European and Asian-ancestry samples identifies three novel loci associated with bipolar disorder. (PubMed id 22182935)1 Chen D.T....Schulze T.G. (Mol. Psychiatry 2013)
    4. Genome-wide association of mood-incongruent psychotic bipolar disorder. (PubMed id 23092984)1 Goes F.S....Potash J.B. (Transl Psychiatry 2012)
    5. Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4. (PubMed id 21926972)1 (Nat. Genet. 2011)
    6. Interaction proteomics analysis of polycomb proteins defines distinct PRC1 Complexes in mammalian cells. (PubMed id 21282530)1 Vandamme J.... Angrand P.O. (Mol. Cell. Proteomics 2011)
    7. Genome-wide association with bone mass and geometry in the Framingham Heart Study. (PubMed id 17903296)4 Kiel D.P....Karasik D. (BMC Med. Genet. 2007)
    8. The DNA sequence, annotation and analysis of human chromosome 3. (PubMed id 16641997)2 Muzny D.M....Gibbs R.A. (Nature 2006)
    9. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)
    10. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)2 Nakajima D.... Nagase T. (DNA Res. 2002)

    (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: 9881 HGNC: 29011 AceView: KIAA0342 Ensembl:ENSG00000168016 euGenes: HUgn9881
    ECgene: TRANK1 H-InvDB: TRANK1

    (According to HUGE)
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    HUGE: KIAA0342

    (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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    NameDescription
    PharmGKB entry for TRANK1 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 TRANK1 gene:
    Search GeneIP for patents involving TRANK1

    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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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