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TLCD2 Gene

protein-coding   GIFtS: 37
GCID: GC17M001606

TLC Domain Containing 2

  Search for TLCD2
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
TLC Domain Containing 21 2
TLC Domain-Containing Protein 22

External Ids:    HGNC: 335221   Entrez Gene: 7279102   Ensembl: ENSG000001855617   UniProtKB: A6NGC43   

Export aliases for TLCD2 gene to outside databases

Previous GC identifers: GC17M001560 GC17M001505


(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 TLCD2 Gene:
TLCD2 (TLC domain containing 2) is a protein-coding gene. An important paralog of this gene is TLCD1.


(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_000017.11  NC_018928.2  NT_010718.17  NT_187611.1  
Regulatory elements:
   Regulatory transcription factor binding sites in the TLCD2 gene promoter:
         E2F-4   E2F-3a   E2F-5   Olf-1   E2F-2   CUTL1   HEN1   E2F   E2F-1   Hlf   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TLCD2


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

Entrez Gene cytogenetic band: 17p13.3   Ensembl cytogenetic band:  17p13.3   HGNC cytogenetic band: 17p13.3

TLCD2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TLCD2 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M001606:  view genomic region     (about GC identifiers)

Start:
1,606,084 bp from pter      End:
1,613,732 bp from pter
Size:
7,649 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: TLCD2_HUMAN, A6NGC4 (See protein sequence)
Recommended Name: TLC domain-containing protein 2  
Size: 264 amino acids; 28733 Da

Explore the universe of human proteins at neXtProt for TLCD2: NX_A6NGC4

Explore proteomics data for TLCD2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TLCD2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001157879.1  
    ENSEMBL proteins: 
     ENSP00000331965  

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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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    1 InterPro protein domain:
     IPR006634 TLC-dom

    Graphical View of Domain Structure for InterPro Entry A6NGC4

    ProtoNet protein and cluster: A6NGC4

    UniProtKB/Swiss-Prot: TLCD2_HUMAN, A6NGC4
    Similarity: Belongs to the TLCD family
    Similarity: Contains 1 TLC (TRAM/LAG1/CLN8) domain


    TLCD2 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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    Phenotypes:
         1 GenomeRNAi human phenotype for TLCD2:
     Synthetic lethal with Ras 

    Animal Models:
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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 UniProtKB/Swiss-Prot
    TLCD2_HUMAN, A6NGC4: Membrane; Multi-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3
    endoplasmic reticulum1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    TLCD2 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 TLCD2
    Interactions:

        Search GeneGlobe Interaction Network for TLCD2

    (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 TLCD2



    (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 TLCD2 gene: 
    NM_001164407.1  

    Unigene Cluster for TLCD2:

    TLC domain containing 2
    Hs.531005  [show with all ESTs]
    Unigene Representative Sequence: NM_001164407
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000330676(uc021tnh.1)
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    Additional mRNA sequence: AK000038.1 

    7 DOTS entries:

    DT.99942524  DT.91912883  DT.433103  DT.100674683  DT.100716497  DT.99980794  DT.121003113 

    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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    TLCD2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    TLCD2 Expression
    About this image

    TLCD2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TLCD2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.531005
        Custom PCR Arrays for TLCD2
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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for TLCD2 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tlcd21 , 5 TLC domain containing 21, 5 77.47(n)1
    74.22(a)1
      11 (45.91 cM)5
    3807121  NM_027249.21  NP_081525.11 
     754617155 
    chicken
    (Gallus gallus)
    Aves TLCD26
    TLC domain containing 2
    44(a)
    1 ↔ 1
    19(5360530-5364288)
    lizard
    (Anolis carolinensis)
    Reptilia TLCD26
    TLC domain containing 2
    41(a)
    1 ↔ 1
    GL343393.1(119958-125828)
    zebrafish
    (Danio rerio)
    Actinopterygii tlcd26
    TLC domain containing 2
    36(a)
    1 ↔ 1
    15(24729220-24766178) ENSDARG00000077396
    worm
    (Caenorhabditis elegans)
    Secernentea Y48G8AL.136
    Y63D3A.86
    (see all 3)
    Protein Y63D3A.8 (Y63D3A.8) mRNA, complete cds
    (see all 3)
    22(a)
    19(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    I(1223956-1229282) WBGene00021691
    I(14114194-14118654) WBGene00013407


    ENSEMBL Gene Tree for TLCD2 (if available)
    TreeFam Gene Tree for TLCD2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TLCD2 gene
    TLCD12  
    1 SIMAP similar gene for TLCD2 using alignment to 1 protein entry:     TLCD2_HUMAN:
    TLCD1

    TLCD2 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 TLCD2 (see all 191)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1147653511,2
    F--1605608(+) TGCTGG/CAATTA 1 -- ds50011Minor allele frequency- C:0.01WA 118
    rs1398248611,2
    --1605788(+) ACAGGC/TGCCTG 1 -- ds50010--------
    rs1824873761,2
    --1605863(+) GGTCTC/TGAACC 1 -- ds50010--------
    rs1453706761,2
    --1605930(+) TGAGCC/TACTGC 1 -- ds50010--------
    rs1868474301,2
    --1606027(+) AGCATC/TGAATT 1 -- ds50010--------
    rs1452376791,2
    --1606079(+) AACCAC/TGCTCA 1 -- ds50010--------
    rs32089651,2
    F--1606212(-) CTTTGT/CCCTCC 1 -- ut311Minor allele frequency- C:0.05MN 184
    rs32089641,2
    F--1606242(-) CATGTC/TTACCA 1 -- ut311Minor allele frequency- T:0.13MN 184
    rs1491717661,2
    C--1606280(+) GGCCAC/TGGTAA 1 -- ut310--------
    rs1421635521,2
    C--1606319(+) AGACTC/GCTACC 1 -- ut310--------

    HapMap Linkage Disequilibrium report for TLCD2 (1606084 - 1613732 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for TLCD2:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv3033n71CNV Loss21882294
    nsv907515CNV Loss21882294
    nsv516886CNV Loss19592680
    nsv907511CNV Loss21882294
    nsv907502CNV Loss21882294
    nsv470568CNV Loss18288195
    nsv907517CNV Loss21882294
    nsv9490CNV Loss18304495
    nsv827856CNV Gain20364138

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    (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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      --

    (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 TLCD2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TLCD2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. When do Lasses (longevity assurance genes) become CerS (ceramide synthases)?: Insights into the regulation of ceramide synthesis. (PubMed id 16793762)1, 3 Pewzner-Jung Y....Futerman A.H. (J. Biol. Chem. 2006)
    2. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)1, 2 Zody M.C.... Nusbaum C. (Nature 2006)

    (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: 727910 HGNC: 33522 Ensembl:ENSG00000185561 euGenes: HUgn727910 ECgene: TLCD2
    H-InvDB: TLCD2

    (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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    NameDescription
    PharmGKB entry for TLCD2 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 TLCD2 gene:
    Search GeneIP for patents involving TLCD2

    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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     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TLCD2
     Browse SwitchGear 3'UTR luciferase reporter plasmids for TLCD2
     Browse SwitchGear Promoter luciferase reporter plasmids for TLCD2
     Search ThermoFisher Antibodies for TLCD2
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat TLCD2
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TLCD2
     inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for TLCD2
     LSBio Antibodies in human, mouse, rat for TLCD2
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
     Browse compounds at ApexBio
           
    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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