Gfi1 growth factor independent 1 transcriptional repressor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Gfi1provided by RGD
Official Full Name: growth factor independent 1 transcriptional repressorprovided by RGD
Primary source: RGD:2680
See related: Ensembl:ENSRNOG00000002042 AllianceGenome:RGD:2680
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
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. Predicted to be involved in negative regulation of neuron projection development; regulation of cellular biosynthetic process; and regulation of signal transduction. Predicted to act 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. 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 (RPKM 68.0), Spleen (RPKM 16.0) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (2185489..2204191)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (2040576..2056874)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (3058035..3073332)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Gfi-1 is recruited to CDKN1A core promoter through Miz-1 and represses CDKN1A transcription.
Title: A role of Miz-1 in Gfi-1-mediated transcriptional repression of CDKN1A.
The structure clearly shows that Gfi-1 zinc fingers 3-5 bind into the major groove of the target DNA reminiscent of canonical C(2)H(2) zinc-finger domains.
Title: Solution structure of Gfi-1 zinc domain bound to consensus DNA.
This protein targets a subset of genes differentiating hematopoietic lineages and plays a role in the hierarchy of factors governing stem cell differentiation.
Title: Targets of the transcriptional repressor oncoprotein Gfi-1.
role for auto- and trans-regulation of Gfi1 by GFI1 and GFI1B in maintaining the normal expression patterns of Gfi1
Title: Targeted transcriptional repression of Gfi1 by GFI1 and GFI1B in lymphoid cells.

Submit: New GeneRIF Correction

General gene information

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Markers

RH94680 (e-PCR)
- UniSTS:119927

D1S3707E (e-PCR)
- UniSTS:474522

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
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 enzyme-substrate adaptor activity	IEA Inferred from Electronic Annotation more info
enables enzyme-substrate adaptor activity	ISO Inferred from Sequence Orthology more info
enables enzyme-substrate adaptor activity	ISS Inferred from Sequence or Structural Similarity 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
involved_in DNA damage response	IEA Inferred from Electronic Annotation more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cell fate commitment	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell fate specification	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear auditory receptor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mechanosensory behavior	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cell fate specification	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-6-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	IEA Inferred from Electronic Annotation more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	IEA Inferred from Electronic Annotation more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: zinc finger protein Gfi-1

Names: Growth factor independent-1; growth factor independent 1 transcription repressor; 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)

NM_012566.2 → NP_036698.1 zinc finger protein Gfi-1

See identical proteins and their annotated locations for NP_036698.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000014

UniProtKB/Swiss-Prot

Q07120

UniProtKB/TrEMBL

A6KPI0

Related

ENSRNOP00000002807.2, ENSRNOT00000002807.4

Conserved Domains (3) summary

COG5048
Location:255 → 417

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:315 → 335

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:355 → 380

zf-H2C2_2; Zinc-finger double domain

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

NC_086032.1 Reference GRCr8

Range

2185489..2204191

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008769920.4 → XP_008768142.1 zinc finger protein Gfi-1 isoform X2

Conserved Domains (2) summary

sd00017
Location:287 → 307

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:299 → 324

zf-H2C2_2; Zinc-finger double domain
XM_008769917.4 → XP_008768139.1 zinc finger protein Gfi-1 isoform X1

See identical proteins and their annotated locations for XP_008768139.1

UniProtKB/Swiss-Prot

Q07120

UniProtKB/TrEMBL

A6KPI0

Conserved Domains (3) summary

COG5048
Location:255 → 417

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:315 → 335

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:355 → 380

zf-H2C2_2; Zinc-finger double domain
XM_008769918.4 → XP_008768140.1 zinc finger protein Gfi-1 isoform X1

See identical proteins and their annotated locations for XP_008768140.1

UniProtKB/Swiss-Prot

Q07120

UniProtKB/TrEMBL

A6KPI0

Conserved Domains (3) summary

COG5048
Location:255 → 417

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:315 → 335

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:355 → 380

zf-H2C2_2; Zinc-finger double domain