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

Gene ID: 230603, updated on 30-Apr-2024

Summary

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
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Genomic context

See Ttc39a in Genome Data Viewer
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

Expression

  • 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

Variation

Alleles

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

Pathways from PubChem

General gene information

Markers

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

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_001145948.2NP_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:469498
    TPR; TPR repeat [structural motif]
    pfam10300
    Location:29483
    DUF3808; Protein of unknown function (DUF3808)
    pfam13424
    Location:477543
    TPR_12; Tetratricopeptide repeat
  2. NM_153392.3NP_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:467496
    TPR; TPR repeat [structural motif]
    pfam10300
    Location:27481
    DUF3808; Protein of unknown function (DUF3808)
    pfam13424
    Location:475541
    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_006502994.5XP_006503057.1  tetratricopeptide repeat protein 39A isoform X1

    Conserved Domains (3) summary
    sd00006
    Location:484513
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:483558
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:32498
    DUF3808; Protein of unknown function (DUF3808)
  2. XM_006502999.5XP_006503062.1  tetratricopeptide repeat protein 39A isoform X6

    Conserved Domains (1) summary
    pfam10300
    Location:32498
    DUF3808; Protein of unknown function (DUF3808)
  3. XM_006502997.3XP_006503060.1  tetratricopeptide repeat protein 39A isoform X4

    Conserved Domains (3) summary
    sd00006
    Location:472501
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:471546
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:32486
    DUF3808; Protein of unknown function (DUF3808)
  4. XM_030253439.2XP_030109299.1  tetratricopeptide repeat protein 39A isoform X7

    Conserved Domains (3) summary
    sd00006
    Location:441470
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:440515
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1455
    DUF3808; Protein of unknown function (DUF3808)
  5. XM_006502998.3XP_006503061.1  tetratricopeptide repeat protein 39A isoform X5

    Conserved Domains (3) summary
    sd00006
    Location:453482
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:452527
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:1467
    DUF3808; Protein of unknown function (DUF3808)
  6. XM_030253440.2XP_030109300.1  tetratricopeptide repeat protein 39A isoform X8

    Conserved Domains (1) summary
    pfam10300
    Location:27481
    DUF3808; Protein of unknown function (DUF3808)
  7. XM_006502996.4XP_006503059.1  tetratricopeptide repeat protein 39A isoform X3

    Conserved Domains (3) summary
    sd00006
    Location:479508
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:478553
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:27493
    DUF3808; Protein of unknown function (DUF3808)
  8. XM_006502995.5XP_006503058.1  tetratricopeptide repeat protein 39A isoform X2

    Conserved Domains (3) summary
    sd00006
    Location:481510
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:480555
    TPR_12; Tetratricopeptide repeat
    pfam10300
    Location:29495
    DUF3808; Protein of unknown function (DUF3808)

RNA

  1. XR_003954911.1 RNA Sequence

  2. XR_003954912.2 RNA Sequence