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    Phtf1 putative homeodomain transcription factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 18685, updated on 2-Oct-2018

    Summary

    Official Symbol
    Phtf1provided by MGI
    Official Full Name
    putative homeodomain transcription factor 1provided by MGI
    Primary source
    MGI:MGI:1332671
    See related
    Ensembl:ENSMUSG00000058388 Vega:OTTMUSG00000024266
    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
    Phft; Phtf; AU041898; AW049785
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 9.3), testis adult (RPKM 8.9) and 28 other tissues See more
    Orthologs

    Genomic context

    See Phtf1 in Genome Data Viewer
    Location:
    3; 3 F2.2
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 3 NC_000069.6 (103968110..104007490)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 3 NC_000069.5 (103772033..103811413)

    Chromosome 3 - NC_000069.6Genomic Context describing neighboring genes Neighboring gene protein tyrosine phosphatase, non-receptor type 22 (lymphoid) Neighboring gene rosbin, round spermatid basic protein 1 Neighboring gene putative homeodomain transcription factor 1, opposite strand Neighboring gene membrane associated guanylate kinase, WW and PDZ domain containing 3 Neighboring gene predicted gene, 17956 Neighboring gene predicted gene 5546

    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 (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    biological_process ND
    No biological Data available
    more info
     
    Component Evidence Code Pubs
    cis-Golgi network ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    putative homeodomain transcription factor 1

    NCBI Reference Sequences (RefSeq)

    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_001163467.1NP_001156939.1  putative homeodomain transcription factor 1 isoform a

      See identical proteins and their annotated locations for NP_001156939.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AC162922, AK019146, BE948000, BU053202, CO041244
      Consensus CDS
      CCDS17698.1
      UniProtKB/Swiss-Prot
      Q9QZ09
      UniProtKB/TrEMBL
      Q5IBN5
      Related
      ENSMUSP00000113973.1, OTTMUSP00000028894, ENSMUST00000117150.7, OTTMUST00000059413
      Conserved Domains (1) summary
      pfam12129
      Location:5149
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor
    2. NM_001163468.1NP_001156940.1  putative homeodomain transcription factor 1 isoform b

      See identical proteins and their annotated locations for NP_001156940.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame coding exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AC162922, AK019146, BE948000, BU053202, CO041244
      Consensus CDS
      CCDS51030.1
      UniProtKB/Swiss-Prot
      Q9QZ09
      UniProtKB/TrEMBL
      Q8C2F6
      Related
      ENSMUSP00000058137.8, OTTMUSP00000043111, ENSMUST00000055425.14, OTTMUST00000080858
      Conserved Domains (1) summary
      pfam12129
      Location:596
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor
    3. NM_001163469.1NP_001156941.1  putative homeodomain transcription factor 1 isoform c

      See identical proteins and their annotated locations for NP_001156941.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame coding exon compared to variant 1. The resulting isoform (c) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AC162922, AK019146, BE948000, BU053202, CO041244
      Consensus CDS
      CCDS51029.1
      UniProtKB/Swiss-Prot
      Q9QZ09
      UniProtKB/TrEMBL
      Q80YS3
      Related
      ENSMUSP00000088184.4, OTTMUSP00000046052, ENSMUST00000090685.10, OTTMUST00000085273
      Conserved Domains (1) summary
      pfam12129
      Location:5149
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor
    4. NM_013629.2NP_038657.2  putative homeodomain transcription factor 1 isoform a

      See identical proteins and their annotated locations for NP_038657.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1 and 2 both encode the same isoform.
      Source sequence(s)
      AC162922, AK019146, BE948000, BU053202, CO041244
      Consensus CDS
      CCDS17698.1
      UniProtKB/Swiss-Prot
      Q9QZ09
      UniProtKB/TrEMBL
      Q5IBN5
      Related
      ENSMUSP00000066607.7, OTTMUSP00000028893, ENSMUST00000063717.13, OTTMUST00000059412
      Conserved Domains (1) summary
      pfam12129
      Location:5149
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000069.6 Reference GRCm38.p4 C57BL/6J

      Range
      103968110..104007490
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006501126.3XP_006501189.1  putative homeodomain transcription factor 1 isoform X2

      See identical proteins and their annotated locations for XP_006501189.1

      Conserved Domains (1) summary
      pfam12129
      Location:5149
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor
    2. XM_006501125.3XP_006501188.1  putative homeodomain transcription factor 1 isoform X1

      See identical proteins and their annotated locations for XP_006501188.1

      Conserved Domains (1) summary
      pfam12129
      Location:5130
      Phtf-FEM1B_bdg; Male germ-cell putative homeodomain transcription factor
    3. XM_017319481.1XP_017174970.1  putative homeodomain transcription factor 1 isoform X3

    4. XM_011240035.2XP_011238337.1  putative homeodomain transcription factor 1 isoform X4

      See identical proteins and their annotated locations for XP_011238337.1

    5. XM_017319483.1XP_017174972.1  putative homeodomain transcription factor 1 isoform X4

    6. XM_017319484.1XP_017174973.1  putative homeodomain transcription factor 1 isoform X5

    7. XM_006501127.1XP_006501190.1  putative homeodomain transcription factor 1 isoform X4

      See identical proteins and their annotated locations for XP_006501190.1

    Reference GRCm38.p4 NOD/MrkTac

    Genomic

    1. NT_166287.2 Reference GRCm38.p4 NOD/MrkTac

      Range
      378214..417599
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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