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    Phtf1 putative homeodomain transcription factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 252962, updated on 9-Dec-2024

    Summary

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    Symbol
    Phtf1provided by RGD
    Full Name
    putative homeodomain transcription factor 1provided by RGD
    Primary source
    RGD:620426
    See related
    EnsemblRapid:ENSRNOG00000019785 AllianceGenome:RGD:620426
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Phtf
    Summary
    Located in cis-Golgi network membrane and endoplasmic reticulum membrane. Orthologous to human PHTF1 (putative homeodomain transcription factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 95.4), Testes (RPKM 83.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phtf1 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (194161343..194249925)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (191470849..191537399)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (206452115..206518387)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L36A, pseudogene 15 Neighboring gene protein tyrosine phosphatase, non-receptor type 22 Neighboring gene round spermatid basic protein 1 Neighboring gene uncharacterized LOC134485663 Neighboring gene membrane associated guanylate kinase, WW and PDZ domain containing 3 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC134485759 Neighboring gene uncharacterized LOC108350079

    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. Expression, regulation, and immunolocalization of putative homeodomain transcription factor 1 (PHTF1) in rodent epididymis: evidence for a novel form resulting from proteolytic cleavage. Oyhenart J, et al. Biol Reprod, 2005 Jan. PMID 15342352
    2. Phtf1 is an integral membrane protein localized in an endoplasmic reticulum domain in maturing male germ cells. Oyhenart J, et al. Biol Reprod, 2003 Mar. PMID 12604659
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PHTF1 is present in the proximal part of the epididymis and it appears when the rats reach 4 wk of age, the 56-kDa PHTF1 epididymal form could result from proteolytical processing.
      Title: Expression, regulation, and immunolocalization of putative homeodomain transcription factor 1 (PHTF1) in rodent epididymis: evidence for a novel form resulting from proteolytic cleavage.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in spermatogenesis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cis-Golgi network membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein PHTF1

    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_001191102.1 → NP_001178031.1  protein PHTF1

      See identical proteins and their annotated locations for NP_001178031.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/Swiss-Prot
      F1M8G0
      UniProtKB/TrEMBL
      A6K3N5
      Conserved Domains (1) summary
      pfam12129
      Location:5 → 151
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor

    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_086020.1 Reference GRCr8

      Range
      194161343..194249925
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281337.1 → XP_063137407.1  protein PHTF1 isoform X2

      UniProtKB/TrEMBL
      A6K3N5
      Related
      ENSRNOP00000105769.1, ENSRNOT00000139079.1

    2. XM_006233061.5 → XP_006233123.1  protein PHTF1 isoform X1

      See identical proteins and their annotated locations for XP_006233123.1

      UniProtKB/Swiss-Prot
      F1M8G0
      UniProtKB/TrEMBL
      A6K3N5
      Related
      ENSRNOP00000084885.2, ENSRNOT00000094636.2
      Conserved Domains (1) summary
      pfam12129
      Location:5 → 151
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor

    3. XM_006233065.5 → XP_006233127.1  protein PHTF1 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AB21, A6K3N5
      Related
      ENSRNOP00000088577.1, ENSRNOT00000113077.2
      Conserved Domains (1) summary
      pfam12129
      Location:5 → 149
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor

    4. XM_006233064.5 → XP_006233126.1  protein PHTF1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZYW2, A6K3N5
      Related
      ENSRNOP00000026863.5, ENSRNOT00000026863.8
      Conserved Domains (1) summary
      pfam12129
      Location:5 → 130
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor

    5. XM_063281338.1 → XP_063137408.1  protein PHTF1 isoform X5

      UniProtKB/TrEMBL
      A6K3N5

    6. XM_039101778.2 → XP_038957706.1  protein PHTF1 isoform X6

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1M8G0.1 GenPept UniProtKB/Swiss-Prot:F1M8G0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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