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    Tbata thymus, brain and testes associated [ Rattus norvegicus (Norway rat) ]

    Gene ID: 499429, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Tbataprovided by RGD
    Official Full Name
    thymus, brain and testes associatedprovided by RGD
    Primary source
    RGD:1561665
    See related
    EnsemblRapid:ENSRNOG00000000564 AllianceGenome:RGD:1561665
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1561665
    Summary
    Predicted to be located in ciliary basal body; cytosol; and nucleus. Orthologous to human TBATA (thymus, brain and testes associated). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 701.4) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tbata in Genome Data Viewer
    Location:
    20q11
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (29660904..29677971)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (29118055..29135124)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (30786239..30804354)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene sphingosine-1-phosphate lyase 1 Neighboring gene transfer RNA serine (anticodon AGA) 16 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif, 14 Neighboring gene perforin 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Dynamic distribution of Spatial during mouse spermatogenesis and its interaction with the kinesin KIF17b. Saade M, et al. Exp Cell Res, 2007 Feb 1. PMID 17196196
    2. Spatial, a gene expressed in thymic stromal cells, depends on three-dimensional thymus organization for its expression. Flomerfelt FA, et al. Genes Immun, 2000 Aug. PMID 11196687

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein SPATIAL; protein TBATA

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001432338.1 → NP_001419267.1  protein SPATIAL isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020

    2. NM_001432339.1 → NP_001419268.1  protein SPATIAL isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      D3ZGK3

    3. NM_001432340.1 → NP_001419269.1  protein SPATIAL isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086038.1 Reference GRCr8

      Range
      29660904..29677971
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039099218.2 → XP_038955146.1  protein TBATA isoform X5

      Conserved Domains (1) summary
      pfam15256
      Location:82 → 272
      SPATIAL

    2. XM_063279669.1 → XP_063135739.1  protein TBATA isoform X11

    3. XM_008772959.3 → XP_008771181.1  protein TBATA isoform X6

      See identical proteins and their annotated locations for XP_008771181.1

      Related
      ENSRNOP00000041407.7, ENSRNOT00000047394.8
      Conserved Domains (1) summary
      pfam15256
      Location:82 → 241
      SPATIAL; SPATIAL

    4. XM_574753.8 → XP_574753.4  protein TBATA isoform X12

      Conserved Domains (1) summary
      pfam15256
      Location:82 → 281
      SPATIAL; SPATIAL

    5. XM_063279670.1 → XP_063135740.1  protein TBATA isoform X13

    6. XM_039099215.2 → XP_038955143.1  protein TBATA isoform X1

      Conserved Domains (1) summary
      pfam15256
      Location:119 → 309
      SPATIAL

    7. XM_039099219.2 → XP_038955147.1  protein TBATA isoform X7

      Conserved Domains (1) summary
      pfam15256
      Location:119 → 349
      SPATIAL

    8. XM_039099216.2 → XP_038955144.1  protein TBATA isoform X2

      Conserved Domains (1) summary
      pfam15256
      Location:119 → 308
      SPATIAL

    9. XM_063279666.1 → XP_063135736.1  protein TBATA isoform X8

    10. XM_063279664.1 → XP_063135734.1  protein TBATA isoform X3

      Related
      ENSRNOP00000077911.2, ENSRNOT00000101241.2

    11. XM_063279667.1 → XP_063135737.1  protein TBATA isoform X9

      Related
      ENSRNOP00000000683.9, ENSRNOT00000000683.9

    12. XM_063279665.1 → XP_063135735.1  protein TBATA isoform X4

    13. XM_063279668.1 → XP_063135738.1  protein TBATA isoform X10

    14. XM_039099223.2 → XP_038955151.1  protein TBATA isoform X15

      Conserved Domains (1) summary
      pfam15256
      Location:119 → 312
      SPATIAL

    15. XM_039099221.2 → XP_038955149.1  protein TBATA isoform X14

      Conserved Domains (1) summary
      pfam15256
      Location:119 → 309
      SPATIAL

    16. XM_063279671.1 → XP_063135741.1  protein TBATA isoform X16

    Nucleotide Protein Strain
    Heading Accession and Version

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