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Ttc39a tetratricopeptide repeat domain 39A [ Mus musculus (house mouse) ]

Gene ID: 230603, updated on 5-Mar-2024

Summary

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Official Symbol
Ttc39aprovided by MGI
Official Full Name
tetratricopeptide repeat domain 39Aprovided by MGI
Primary source
MGI:MGI:2444350
See related
Ensembl:ENSMUSG00000028555 AllianceGenome:MGI:2444350
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
4922503N01Rik
Summary
Predicted to be located in centrosome. Is expressed in bladder; gut; and liver. Orthologous to human TTC39A (tetratricopeptide repeat domain 39A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 47.8), colon adult (RPKM 35.7) and 15 other tissues See more
Orthologs
human all
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Genomic context

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Location:
4 C7; 4 51.29 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (109251344..109301942)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (109394147..109444749)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene epidermal growth factor receptor pathway substrate 15 Neighboring gene predicted gene, 52702 Neighboring gene basic leucine zipper and W2 domains 1 pseudogene Neighboring gene Ttc39a opposite strand RNA 1 Neighboring gene STARR-seq mESC enhancer starr_11070 Neighboring gene ring finger protein 11 Neighboring gene RIKEN cDNA 4930522H14 gene Neighboring gene STARR-positive B cell enhancer ABC_E4645

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
  2. Identification of transcripts with enriched expression in the developing and adult pancreas. Hoffman BG, et al. Genome Biol, 2008. PMID 18554416, Free PMC Article
  3. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC37599

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tetratricopeptide repeat protein 39A
Names
TPR 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_001145948.2 → NP_001139420.1  tetratricopeptide repeat protein 39A isoform 1

    See identical proteins and their annotated locations for NP_001139420.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AL669905
    Consensus CDS
    CCDS51260.1
    UniProtKB/Swiss-Prot
    A2ACN9, A2ACP1, A2ACP2, A2ACP3, A2ACP4, Q6A067, Q8C612, Q8CFL5, Q8K1A9
    Related
    ENSMUSP00000102229.2, ENSMUST00000106618.8
    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

  2. NM_153392.3 → NP_700441.2  tetratricopeptide repeat protein 39A isoform 2

    See identical proteins and their annotated locations for NP_700441.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AL669905
    Consensus CDS
    CCDS18463.1
    UniProtKB/Swiss-Prot
    A2ACP1
    Related
    ENSMUSP00000066334.8, ENSMUST00000064129.14
    Conserved Domains (3) summary
    sd00006
    Location:467 → 496
    TPR; TPR repeat [structural motif]
    pfam10300
    Location:27 → 481
    DUF3808; Protein of unknown function (DUF3808)
    pfam13424
    Location:475 → 541
    TPR_12; Tetratricopeptide repeat

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    109251344..109301942
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006502994.5 → XP_006503057.1  tetratricopeptide repeat protein 39A isoform X1

    Conserved Domains (3) summary
    sd00006
    Location:484 → 513
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:483 → 558
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:32 → 498
    DUF3808; Protein of unknown function (DUF3808)

  2. XM_006502999.5 → XP_006503062.1  tetratricopeptide repeat protein 39A isoform X6

    Conserved Domains (1) summary
    pfam10300
    Location:32 → 498
    DUF3808; Protein of unknown function (DUF3808)

  3. XM_006502997.3 → XP_006503060.1  tetratricopeptide repeat protein 39A isoform X4

    Conserved Domains (3) summary
    sd00006
    Location:472 → 501
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:471 → 546
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:32 → 486
    DUF3808; Protein of unknown function (DUF3808)

  4. XM_030253439.2 → XP_030109299.1  tetratricopeptide repeat protein 39A isoform X7

    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_006502998.3 → XP_006503061.1  tetratricopeptide repeat protein 39A isoform X5

    Conserved Domains (3) summary
    sd00006
    Location:453 → 482
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:452 → 527
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1 → 467
    DUF3808; Protein of unknown function (DUF3808)

  6. XM_030253440.2 → XP_030109300.1  tetratricopeptide repeat protein 39A isoform X8

    Conserved Domains (1) summary
    pfam10300
    Location:27 → 481
    DUF3808; Protein of unknown function (DUF3808)

  7. XM_006502996.4 → XP_006503059.1  tetratricopeptide repeat protein 39A isoform X3

    Conserved Domains (3) summary
    sd00006
    Location:479 → 508
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:478 → 553
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:27 → 493
    DUF3808; Protein of unknown function (DUF3808)

  8. XM_006502995.5 → XP_006503058.1  tetratricopeptide repeat protein 39A isoform X2

    Conserved Domains (3) summary
    sd00006
    Location:481 → 510
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:480 → 555
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:29 → 495
    DUF3808; Protein of unknown function (DUF3808)

RNA

  1. XR_003954911.1 RNA Sequence

  2. XR_003954912.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A2ACP1.1 GenPept UniProtKB/Swiss-Prot:A2ACP1

Gene LinkOut

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