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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TCTEX1D1 Gene

protein-coding   GIFtS: 41
GCID: GC01P067218

Tctex1 domain containing 1
  Search for TCTEX1D1
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 Human Malady Compendium 
Biological research products
for TCTEX1D1    

Aliases
for TCTEX1D1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Tctex1 Domain Containing 11 2
FLJ408731
RP11-266I14.22
Tctex1 Domain-Containing Protein 12

External Ids:    HGNC: 268821   Entrez Gene: 2001322   Ensembl: ENSG000001527607   UniProtKB: Q8N7M03   

Export aliases for TCTEX1D1 gene to outside databases

Previous GC identifers: GC01P066931 GC01P065328


Summaries
for TCTEX1D1 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for TCTEX1D1 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.1  NT_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TCTEX1D1 gene promoter:
         Sox5   AML1a   NRSF form 1   HSF1 (long)   NRSF form 2   LCR-F1   FOXJ2 (long isoform)   HSF2   HSF1short   FOXJ2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: TCTEX1D1 promoter sequence
   Search SABiosciences Chromatin IP Primers for TCTEX1D1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TCTEX1D1


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

Entrez Gene cytogenetic band: 1p31.3   Ensembl cytogenetic band:  1p31.3   HGNC cytogenetic band: 1p31.2

TCTEX1D1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TCTEX1D1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P067218:  view genomic region     (about GC identifiers)

Start:
 67,218,140 bp from pter      End:
 67,244,730 bp from pter
Size:
 26,591 bases      Orientation:
 plus strand

Proteins
for TCTEX1D1 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: TC1D1_HUMAN, Q8N7M0 (See protein sequence)
Recommended Name: Tctex1 domain-containing protein 1  
Size: 179 amino acids; 20730 Da
Secondary accessions: Q06YR9 Q5VYE1
Alternative splicing: 2 isoforms:  Q8N7M0-1   Q8N7M0-2   

Explore the universe of human proteins at neXtProt for TCTEX1D1: NX_Q8N7M0

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N7M0

    • TCTEX1D1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_689878.2  
    ENSEMBL proteins: 
     ENSP00000282670   ENSP00000436731  

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    Protein Domains /
    Families
    for TCTEX1D1 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    TCTEX1D1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR005334 Tctex

    Graphical View of Domain Structure for InterPro Entry Q8N7M0

    ProtoNet protein and cluster: Q8N7M0

    1 Blocks protein family: IPB005334 Tctex-1 family

    UniProtKB/Swiss-Prot: TC1D1_HUMAN, Q8N7M0
    Similarity: Belongs to the dynein light chain Tctex-type family


    Function
    for TCTEX1D1 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    hsa-miR-4291 hsa-miR-3607-3p hsa-miR-106a hsa-miR-488 hsa-miR-192 hsa-miR-519a hsa-miR-570 hsa-miR-629*
    SwitchGear 3'UTR luciferase reporter plasmid: TCTEX1D1 3' UTR sequence
    Inhib. RNA
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    In Situ Assay
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    2 GenomeRNAi human phenotypes for TCTEX1D1:
     Decreased viability with pacli  Increased gamma-H2AX phosphory 


    Pathways & Interactions
    for TCTEX1D1 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TCTEX1D1

    Drugs & Compounds
    for TCTEX1D1 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TCTEX1D1
    Search CenterWatch for drugs/clinical trials and news about TCTEX1D1 / TC1D1 

    Transcripts
    for TCTEX1D1 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for TCTEX1D1 gene: 
    NM_152665.2  

    Unigene Cluster for TCTEX1D1:

    Tctex1 domain containing 1
    Hs.479226  [show with all ESTs]
    Unigene Representative Sequence: NM_152665
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000525663 ENST00000282670(uc001dcv.3 uc009wau.3 uc009wav.3)
    ENST00000528352 ENST00000491611 ENST00000489510

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    hsa-miR-4291 hsa-miR-3607-3p hsa-miR-106a hsa-miR-488 hsa-miR-192 hsa-miR-519a hsa-miR-570 hsa-miR-629*
    SwitchGear 3'UTR luciferase reporter plasmid: TCTEX1D1 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TCTEX1D1 (see all 7)
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AK098192.1 AK307100.1 AK307878.1 BC106885.2 

    3 DOTS entries:

    DT.405769  DT.100670749  DT.405768 

    18 AceView cDNA sequences:

    CR605314 BM977665 BX118040 AL535158 BM978835 CB243991 AL565804 CB242202 
    AW172591 AK098192 AI016360 CF593241 NM_152665 BX430981 CB854125 AW629442 
    BE349195 BX430980 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for TCTEX1D1    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c
    SP1:              -     -           -     -     -                           
    SP2:                                                                        
    SP3:              -     -                                                   
    SP4:              -     -           -     -     -     -                     
    SP5:                                                                        


    ECgene alternative splicing isoforms for TCTEX1D1

    Expression
    for TCTEX1D1 gene

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TCTEX1D1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAGTAAAAAA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    TCTEX1D1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Posterior foregut-like cells (A scalable, suspensi...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See TCTEX1D1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TCTEX1D1

    SOURCE GeneReport for Unigene cluster: Hs.479226
        SABiosciences Custom PCR Arrays for TCTEX1D1
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    In Situ
    Assay Products:     
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    Orthologs
    for TCTEX1D1 gene

    (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)
    About This Section
    This gene was present in the common ancestor of chordates.

    Orthologs for TCTEX1D1 gene from 4/17 species (see all 17)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves TCTEX1D11 Tctex1 domain containing 1 63.3(n)
    63.3(a)    		   424701  XM_422530.2  XP_422530.2 
    lizard
    (Anolis carolinensis)    		 Reptilia TCTEX1D16
    		 --
    		 69(a)
    		 1 ↔ 1
    		 GL343410.1(262699-269750)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.107062 Xenopus laevis transcribed sequence with weak similarity more 76.44(n)    AW639823.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii BM342385.12   -- 74.7(n)    BM342385.1 


    ENSEMBL Gene Tree for TCTEX1D1 (if available)
    TreeFam Gene Tree for TCTEX1D1 (if available) 

    Paralogs
    for TCTEX1D1 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TCTEX1D1 gene
    TCTEX1D22  TCTEX1D42  TCTE32  
    1 SIMAP similar gene for TCTEX1D1 using alignment to 3 protein entries:     TC1D1_HUMAN (see all proteins):
    TCTEX1D2

    TCTEX1D1 for paralogs           About GeneDecksing



    Genomic Variants
    for TCTEX1D1 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/528 NCBI SNPs in TCTEX1D1 are shown (see all 528)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 1 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1445692301,2
    		--67216184(+) ATCTAC/TGTAGC 1 -- us2k10--------
    rs1484806081,2
    		--67216343(+) TACACA/GTCTAT 1 -- us2k10--------
    rs2012602371,2
    		C--67216373(+) TTCTGA/CCNNNN 1 -- us2k10--------
    rs1877065051,2
    		--67216377(+) GACAGA/CCATTA 1 -- us2k10--------
    rs359730721,2
    		C,--67216455(-) CAAGTAAGT/-  
                CTTCG     		1 -- us2k16Minor allele frequency- -:0.38EU EA NA MN CSA 432
    rs1922806171,2
    		--67216583(+) TAGAAA/TTAGTA 1 -- us2k10--------
    rs612212991,2
    		C,--67216632(+) TTTTTT/AGTTCA 1 -- us2k12Minor allele frequency- A:0.02WA 120
    rs1828921551,2
    		--67216653(+) AATCAC/TCTATT 1 -- us2k10--------
    rs29161,2
    		C,F,O,A,H,--67216697(-) AGTAAC/TGTGTC 1 -- us2k123Minor allele frequency- T:0.29NS EA NA WA 2086
    rs12803101,2
    		C,F,O,A,H,--67216823(-) GCAAAA/TGATAT 1 -- us2k1 tfbs316Minor allele frequency- T:0.27NS EA NA WA CSA 767

    HapMap Linkage Disequilibrium report for TCTEX1D1 (67218140 - 67244730 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for TCTEX1D1: --

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    Disorders / Diseases
    for TCTEX1D1 gene

    (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.)
    About This Section
    		   --

    Publications
    for TCTEX1D1 gene

    (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)
    About This Section

    PubMed articles for TCTEX1D1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with TCTEX1D1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    External Searches for TCTEX1D1 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing TCTEX1D1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 200132 HGNC: 26882 AceView: FLJ40873 Ensembl:ENSG00000152760 euGenes: HUgn200132
    ECgene: TCTEX1D1 H-InvDB: TCTEX1D1

    Other Databases showing TCTEX1D1 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing TCTEX1D1 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TCTEX1D1 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for TCTEX1D1 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for TCTEX1D1 gene:
    Search GeneIP for patents involving TCTEX1D1

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



    Products
    for TCTEX1D1 gene

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    In Situ Hybridization Assays from
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