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    Tgif1 TGFB-induced factor homeobox 1 [ Mus musculus (house mouse) ]

    Gene ID: 21815, updated on 3-Dec-2024

    Summary

    Official Symbol
    Tgif1provided by MGI
    Official Full Name
    TGFB-induced factor homeobox 1provided by MGI
    Primary source
    MGI:MGI:1194497
    See related
    Ensembl:ENSMUSG00000047407 AllianceGenome:MGI:1194497
    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
    Tgif
    Summary
    Enables chromatin binding activity. Acts upstream of or within several processes, including negative regulation of retinoic acid receptor signaling pathway; positive regulation of amacrine cell differentiation; and regionalization. Located in nucleus. Is expressed in several structures, including alimentary system; brain; early conceptus; embryo ectoderm; and genitourinary system. Used to study otitis media. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 4. Orthologous to human TGIF1 (TGFB induced factor homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 15.8), bladder adult (RPKM 9.9) and 24 other tissues See more
    Orthologs
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    Genomic context

    See Tgif1 in Genome Data Viewer
    Location:
    17 E1.3; 17 41.87 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (71151200..71160527, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (70844205..70853532, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene DLG associated protein 1 Neighboring gene STARR-seq mESC enhancer starr_43149 Neighboring gene STARR-seq mESC enhancer starr_43152 Neighboring gene predicted gene, 41609 Neighboring gene STARR-seq mESC enhancer starr_43157 Neighboring gene STARR-seq mESC enhancer starr_43159 Neighboring gene STARR-positive B cell enhancer ABC_E8692 Neighboring gene STARR-positive B cell enhancer ABC_E7553 Neighboring gene predicted gene, 41610 Neighboring gene predicted gene, 36856 Neighboring gene microRNA 1195

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (6)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables JUN kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables co-SMAD binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of amacrine cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within determination of left/right symmetry IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within dorsal/ventral pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of retinoic acid receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neural tube closure IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of neuron differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within nodal signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of amacrine cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of gastrulation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within retina development in camera-type eye IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    homeobox protein TGIF1
    Names
    5'-TG-3'-interacting factor 1
    TALE family homeobox
    TG interacting factor 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001164074.1NP_001157546.1  homeobox protein TGIF1 isoform c

      See identical proteins and their annotated locations for NP_001157546.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) represents use of an alternate promoter and 5' UTR and uses a downstream start codon, compared to variant 1. The resulting isoform (c) has a shorter N-terminus, compared to isoform a. Variants 3, 4, and 5 all encode the same isoform.
      Source sequence(s)
      AC079441, AK160193, BY096128
      Consensus CDS
      CCDS50174.1
      UniProtKB/TrEMBL
      D3Z0Q5, Q3TVD4
      Related
      ENSMUSP00000113192.2, ENSMUST00000118283.8
      Conserved Domains (1) summary
      pfam05920
      Location:3372
      Homeobox_KN; Homeobox KN domain
    2. NM_001164075.1NP_001157547.1  homeobox protein TGIF1 isoform a

      See identical proteins and their annotated locations for NP_001157547.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AC079441, CT009715
      Consensus CDS
      CCDS50175.1
      UniProtKB/TrEMBL
      G3UWC5
      Related
      ENSMUSP00000130930.3, ENSMUST00000166395.9
      Conserved Domains (1) summary
      pfam05920
      Location:86125
      Homeobox_KN; Homeobox KN domain
    3. NM_001164076.1NP_001157548.1  homeobox protein TGIF1 isoform c

      See identical proteins and their annotated locations for NP_001157548.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) represents use of an alternate promoter and 5' UTR and uses a downstream start codon, compared to variant 1. The resulting isoform (c) has a shorter N-terminus, compared to isoform a. Variants 3, 4, and 5 all encode the same isoform.
      Source sequence(s)
      AC079441
      Consensus CDS
      CCDS50174.1
      UniProtKB/TrEMBL
      D3Z0Q5, Q3TVD4
      Related
      ENSMUSP00000127139.2, ENSMUST00000172229.8
      Conserved Domains (1) summary
      pfam05920
      Location:3372
      Homeobox_KN; Homeobox KN domain
    4. NM_001164077.1NP_001157549.1  homeobox protein TGIF1 isoform c

      See identical proteins and their annotated locations for NP_001157549.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) represents use of an alternate promoter and 5' UTR and uses a downstream start codon, compared to variant 1. The resulting isoform (c) has a shorter N-terminus, compared to isoform a. Variants 3, 4, and 5 all encode the same isoform.
      Source sequence(s)
      AC079441
      Consensus CDS
      CCDS50174.1
      UniProtKB/TrEMBL
      D3Z0Q5, Q3TVD4
      Conserved Domains (1) summary
      pfam05920
      Location:3372
      Homeobox_KN; Homeobox KN domain
    5. NM_001424959.1NP_001411888.1  homeobox protein TGIF1 isoform d

      Status: VALIDATED

      Source sequence(s)
      AC079441
      UniProtKB/TrEMBL
      D3Z0Q5
    6. NM_001424962.1NP_001411891.1  homeobox protein TGIF1 isoform c

      Status: VALIDATED

      Source sequence(s)
      AC079441
      UniProtKB/TrEMBL
      D3Z0Q5, Q3TVD4
    7. NM_009372.3NP_033398.2  homeobox protein TGIF1 isoform b

      See identical proteins and their annotated locations for NP_033398.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, and uses a distinct start codon, compared to variant 1. The resulting isoform (b) has a shorter and distinct N-terminus, compared to isoform a.
      Source sequence(s)
      AC079441, AK008909, AK160193, CD563532
      Consensus CDS
      CCDS37683.1
      UniProtKB/Swiss-Prot
      P70284, Q921F9, Q99JS3
      UniProtKB/TrEMBL
      D3Z0Q5
      Related
      ENSMUSP00000060512.9, ENSMUST00000059775.15
      Conserved Domains (1) summary
      pfam05920
      Location:5392
      Homeobox_KN; Homeobox KN domain

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      71151200..71160527 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160474.1XP_036016367.1  homeobox protein TGIF1 isoform X2

      UniProtKB/TrEMBL
      D3Z0Q5
      Conserved Domains (1) summary
      pfam05920
      Location:5291
      Homeobox_KN; Homeobox KN domain