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Gfi1 growth factor independent 1 transcription repressor [ Mus musculus (house mouse) ]

Gene ID: 14581, updated on 1-Mar-2024

Summary

Official Symbol
Gfi1provided by MGI
Official Full Name
growth factor independent 1 transcription repressorprovided by MGI
Primary source
MGI:MGI:103170
See related
Ensembl:ENSMUSG00000029275 AllianceGenome:MGI:103170
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
Pal1; Gfi-1; Pal-1
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of NF-kappaB transcription factor activity and negative regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including cellular response to lipopolysaccharide; inner ear development; and regulation of cell fate specification. Predicted to be located in nuclear body and nuclear matrix. Predicted to be part of transcription repressor complex. Is expressed in several structures, including gut epithelium; hemolymphoid system; liver; nervous system; and sensory organ. Used to study severe congenital neutropenia. Human ortholog(s) of this gene implicated in acute myeloid leukemia and severe congenital neutropenia 2. Orthologous to human GFI1 (growth factor independent 1 transcriptional repressor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in thymus adult (RPKM 40.7), colon adult (RPKM 6.0) and 3 other tissues See more
Orthologs
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Genomic context

See Gfi1 in Genome Data Viewer
Location:
5 F; 5 52.23 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (107864521..107873671, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (107716655..107725805, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene RNA polymerase II associated protein 2 Neighboring gene RIKEN cDNA A930041C12 gene Neighboring gene Gfi1 +35 kb enhancer Neighboring gene RIKEN cDNA 4930428O21 gene Neighboring gene +19.5 kb enhancer downstream of Gfi1 Neighboring gene Gfi1 +5.8 kb enhancer Neighboring gene Gfi1 promoter regions Neighboring gene -8.7 kb enhancer upstream of Gfi1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:108168116-108168348 Neighboring gene predicted gene, 42147 Neighboring gene Gfi1 -35 kb enhancer Neighboring gene STARR-seq mESC enhancer starr_13892 Neighboring gene ecotropic viral integration site 5 Neighboring gene ubiquitin-conjugating enzyme E2D 2B

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)

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 factor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA-binding transcription repressor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
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
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within cell fate commitment IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of cell fate specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within inner ear auditory receptor cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within inner ear morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within mechanosensory behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of calcidiol 1-monooxygenase activity ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of cell fate specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of cell fate specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of interleukin-6-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of toll-like receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
zinc finger protein Gfi-1
Names
growth factor independent protein 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_001267621.1NP_001254550.1  zinc finger protein Gfi-1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) includes an alternate 5' exon and thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (2) has a distinct and longer N-terminus, compared to isoform 1.
    Source sequence(s)
    AC138666, AV261275
    Consensus CDS
    CCDS59680.1
    UniProtKB/TrEMBL
    H3BJM0
    Related
    ENSMUSP00000135039.3, ENSMUST00000065478.12
    Conserved Domains (3) summary
    COG5048
    Location:321483
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:381401
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:421446
    zf-H2C2_2; Zinc-finger double domain
  2. NM_010278.2NP_034408.1  zinc finger protein Gfi-1 isoform 1

    See identical proteins and their annotated locations for NP_034408.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the shorter isoform (1).
    Source sequence(s)
    AC138666, AV261275
    Consensus CDS
    CCDS57371.1
    UniProtKB/TrEMBL
    A0A0R4J292
    Related
    ENSMUSP00000135884.3, ENSMUST00000031205.16
    Conserved Domains (3) summary
    COG5048
    Location:255417
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:315335
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:355380
    zf-H2C2_2; Zinc-finger double 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_000071.7 Reference GRCm39 C57BL/6J

    Range
    107864521..107873671 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)