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

Gene ID: 252962, updated on 2-Nov-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, Nov 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 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

    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

  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

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