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

Gene ID: 21815, updated on 8-Dec-2022

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; nodal signaling pathway; and positive regulation of fibroblast proliferation. 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, Apr 2022]
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; 17 E1.3
Exon count:
6
Annotation release Status Assembly Chr Location
109 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 predicted gene, 41609 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)
  • Targeted (6)  1 citation
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

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
PubMed 
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 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
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 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

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)

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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_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/Swiss-Prot
    P70284
    UniProtKB/TrEMBL
    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/Swiss-Prot
    P70284
    UniProtKB/TrEMBL
    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/Swiss-Prot
    P70284
    UniProtKB/TrEMBL
    Q3TVD4
    Conserved Domains (1) summary
    pfam05920
    Location:3372
    Homeobox_KN; Homeobox KN domain
  5. 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, Q99JS3
    UniProtKB/TrEMBL
    Q3TVD4
    Related
    ENSMUSP00000060512.9, ENSMUST00000059775.15
    Conserved Domains (1) summary
    pfam05920
    Location:5392
    Homeobox_KN; Homeobox KN domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Conserved Domains (1) summary
    pfam05920
    Location:5291
    Homeobox_KN; Homeobox KN domain
  2. XM_011246363.4XP_011244665.1  homeobox protein TGIF1 isoform X1

    Conserved Domains (1) summary
    pfam05920
    Location:5695
    Homeobox_KN; Homeobox KN domain
  3. XM_006524032.4XP_006524095.1  homeobox protein TGIF1 isoform X3

    See identical proteins and their annotated locations for XP_006524095.1

    UniProtKB/Swiss-Prot
    P70284
    UniProtKB/TrEMBL
    Q3TVD4
    Conserved Domains (1) summary
    pfam05920
    Location:3372
    Homeobox_KN; Homeobox KN domain