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Ttc39a tetratricopeptide repeat domain 39A [ Rattus norvegicus (Norway rat) ]

Gene ID: 298366, updated on 10-Oct-2024

Summary

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Symbol
Ttc39aprovided by RGD
Full Name
tetratricopeptide repeat domain 39Aprovided by RGD
Primary source
RGD:1311126
See related
EnsemblRapid:ENSRNOG00000047573 AllianceGenome:RGD:1311126
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
RGD1311126
Summary
Predicted to be located in centrosome. Orthologous to human TTC39A (tetratricopeptide repeat domain 39A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 56.8), Spleen (RPKM 41.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ttc39a in Genome Data Viewer
Location:
5q35
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (129379560..129441779)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (124165102..124204740)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (129024505..129083226)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351012 Neighboring gene calreticulin 4 Neighboring gene epidermal growth factor receptor pathway substrate 15 Neighboring gene ring finger protein 11 Neighboring gene similar to human chromosome 1 open reading frame 185 Neighboring gene RNA, U4 small nuclear 2

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 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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tetratricopeptide repeat protein 39A

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_001415826.1 → NP_001402755.1  tetratricopeptide repeat protein 39A

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    Related
    ENSRNOP00000101187.1, ENSRNOT00000144812.1

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_086023.1 Reference GRCr8

    Range
    129379560..129441779
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063287386.1 → XP_063143456.1  tetratricopeptide repeat protein 39A isoform X1

    UniProtKB/TrEMBL
    F7F7D5
    Related
    ENSRNOP00000013459.6, ENSRNOT00000013459.8

  2. XM_063287387.1 → XP_063143457.1  tetratricopeptide repeat protein 39A isoform X3

    UniProtKB/TrEMBL
    M0RC03
    Related
    ENSRNOP00000099685.1, ENSRNOT00000128949.1

  3. XM_008763953.4 → XP_008762175.1  tetratricopeptide repeat protein 39A isoform X4

    UniProtKB/TrEMBL
    A6JYY6
    Conserved Domains (3) summary
    sd00006
    Location:441 → 470
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:440 → 515
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1 → 455
    DUF3808; Protein of unknown function (DUF3808)

  4. XM_039109557.2 → XP_038965485.1  tetratricopeptide repeat protein 39A isoform X4

    UniProtKB/TrEMBL
    A6JYY6
    Conserved Domains (3) summary
    sd00006
    Location:441 → 470
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:440 → 515
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1 → 455
    DUF3808; Protein of unknown function (DUF3808)

  5. XM_006238582.5 → XP_006238644.1  tetratricopeptide repeat protein 39A isoform X2

    See identical proteins and their annotated locations for XP_006238644.1

    UniProtKB/TrEMBL
    A6JYY5, B5DEK2, D4A4G3, M0R3L2
    Related
    ENSRNOP00000067106.3, ENSRNOT00000072396.4
    Conserved Domains (3) summary
    sd00006
    Location:469 → 498
    TPR; TPR repeat [structural motif]
    pfam10300
    Location:29 → 483
    DUF3808; Protein of unknown function (DUF3808)
    pfam13424
    Location:477 → 543
    TPR_12; Tetratricopeptide repeat

  6. XM_039109556.2 → XP_038965484.1  tetratricopeptide repeat protein 39A isoform X4

    UniProtKB/TrEMBL
    A6JYY6
    Conserved Domains (3) summary
    sd00006
    Location:441 → 470
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:440 → 515
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1 → 455
    DUF3808; Protein of unknown function (DUF3808)

  7. XM_017593270.3 → XP_017448759.1  tetratricopeptide repeat protein 39A isoform X5

Nucleotide Protein Strain
Heading Accession and Version

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