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Aliases for NFX1 Gene

Aliases for NFX1 Gene

  • Nuclear Transcription Factor, X-Box Binding 1 2 3 5
  • Nuclear Transcription Factor, X Box-Binding Protein 1 3 4
  • NFX2 3 4
  • Transcriptional Repressor NF-X1 3
  • EC 6.3.2.- 4
  • TEG-42 3
  • Tex42 3

External Ids for NFX1 Gene

Previous GeneCards Identifiers for NFX1 Gene

  • GC09P033602
  • GC09P033459

Summaries for NFX1 Gene

Entrez Gene Summary for NFX1 Gene

  • MHC class II gene expression is controlled primarily at the transcriptional level by transcription factors that bind to the X and Y boxes, two highly conserved elements in the proximal promoter of MHC class II genes. The protein encoded by this gene is a transcriptional repressor capable of binding to the conserved X box motif of HLA-DRA and other MHC class II genes in vitro. The protein may play a role in regulating the duration of an inflammatory response by limiting the period in which class II MHC molecules are induced by IFN-gamma. Three alternative splice variants, each of which encodes a different isoform, have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for NFX1 Gene

NFX1 (Nuclear Transcription Factor, X-Box Binding 1) is a Protein Coding gene. Among its related pathways are Apoptosis and survival Caspase cascade. GO annotations related to this gene include nucleic acid binding and transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is NFXL1.

UniProtKB/Swiss-Prot for NFX1 Gene

  • Binds to the X-box motif of MHC class II genes and represses their expression. May play an important role in regulating the duration of an inflammatory response by limiting the period in which MHC class II molecules are induced by interferon-gamma. Isoform 3 binds to the X-box motif of TERT promoter and represses its expression. Together with PABPC1 or PABPC4, isoform 1 acts as a coactivator for TERT expression. Mediates E2-dependent ubiquitination.

Gene Wiki entry for NFX1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NFX1 Gene

Genomics for NFX1 Gene

Regulatory Elements for NFX1 Gene

Enhancers for NFX1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09G033286 1.7 Ensembl ENCODE dbSUPER 33.8 +2.7 2707 13.0 CREB3L1 MLX AGO1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC NFX1 BAG1 SMU1 ANXA2P2 CHMP5 AQP3 B4GALT1 SPINK4 PIR32325
GH09G033349 1.1 Ensembl ENCODE dbSUPER 40.6 +60.1 60138 2.5 RFX1 BHLHE40 HLF CEBPB CEBPG BRCA1 ZKSCAN1 POLR2A CEBPA FOS NFX1 BAG1 LOC105376020 AQP7 CHMP5 LOC105376018 GC09P033345 PIR45697
GH09G033226 1.5 Ensembl ENCODE dbSUPER 19.5 -58.4 -58429 11.0 PKNOX1 FOXA2 ARID4B SIN3A BRCA1 ZBTB7B ZNF121 GLIS2 FOS DEK NFX1 BAG1 CHMP5 B4GALT1 B4GALT1-AS1 SMU1 RNU4ATAC15P DFFBP1 SPINK4 GC09P033251
GH09G033327 1.4 Ensembl ENCODE dbSUPER 20.3 +38.9 38912 3.4 TBP PKNOX1 NFIB SIN3A BRCA1 RAD21 RFX5 YY1 POLR3A GATA2 NFX1 BAG1 CHMP5 LOC105376020 AQP7 PIR45697 GC09P033345 GC09M033166
GH09G033318 1.2 Ensembl ENCODE dbSUPER 22.5 +30.4 30403 4.8 PAF1 CTCF STAT1 JUN BHLHE40 CEBPB EP300 MAFF JUND STAT3 NFX1 BAG1 CHMP5 LOC105376020 AQP7 AQP3 B4GALT1 B4GALT1-AS1 GC09M033166 GC09P033345
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NFX1 on UCSC Golden Path with GeneCards custom track

Promoters for NFX1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000234379 80 1801 CREB3L1 MLX AGO1 DMAP1 FEZF1 YY1 ZNF143 ZNF263 SP3 NFYC

Genomic Location for NFX1 Gene

Chromosome:
9
Start:
33,290,420 bp from pter
End:
33,371,157 bp from pter
Size:
80,738 bases
Orientation:
Plus strand

Genomic View for NFX1 Gene

Genes around NFX1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NFX1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NFX1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NFX1 Gene

Proteins for NFX1 Gene

  • Protein details for NFX1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q12986-NFX1_HUMAN
    Recommended name:
    Transcriptional repressor NF-X1
    Protein Accession:
    Q12986
    Secondary Accessions:
    • A8K6H8
    • Q5VXW6
    • Q96EL5
    • Q9BXI1

    Protein attributes for NFX1 Gene

    Size:
    1120 amino acids
    Molecular mass:
    124395 Da
    Quaternary structure:
    • Isoform 1 and isoform 3 interact with human papillomavirus (HPV) type-16 E6 oncoprotein. Isoform 1 interacts with PABPC1 and PABPC4.
    SequenceCaution:
    • Sequence=AAA69517.1; Type=Frameshift; Positions=78, 202, 284; Evidence={ECO:0000305};

    Alternative splice isoforms for NFX1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NFX1 Gene

Post-translational modifications for NFX1 Gene

  • Isoform 3 is polyubiquitinated in the presence of HPV16 E6 protein; which leads to proteasomal degradation. Isoform 1 is not polyubiquitinated.
  • Ubiquitination at Lys548 and posLast=885885
  • Modification sites at PhosphoSitePlus

Other Protein References for NFX1 Gene

No data available for DME Specific Peptides for NFX1 Gene

Domains & Families for NFX1 Gene

Gene Families for NFX1 Gene

Suggested Antigen Peptide Sequences for NFX1 Gene

Graphical View of Domain Structure for InterPro Entry

Q12986

UniProtKB/Swiss-Prot:

NFX1_HUMAN :
  • The RING-type zinc finger domain interacts with an ubiquitin-conjugating enzyme (E2) and facilitates ubiquitination.
  • Belongs to the NFX1 family.
Domain:
  • The RING-type zinc finger domain interacts with an ubiquitin-conjugating enzyme (E2) and facilitates ubiquitination.
Family:
  • Belongs to the NFX1 family.
genes like me logo Genes that share domains with NFX1: view

Function for NFX1 Gene

Molecular function for NFX1 Gene

UniProtKB/Swiss-Prot Function:
Binds to the X-box motif of MHC class II genes and represses their expression. May play an important role in regulating the duration of an inflammatory response by limiting the period in which MHC class II molecules are induced by interferon-gamma. Isoform 3 binds to the X-box motif of TERT promoter and represses its expression. Together with PABPC1 or PABPC4, isoform 1 acts as a coactivator for TERT expression. Mediates E2-dependent ubiquitination.
UniProtKB/Swiss-Prot Induction:
By IFNG/IFN-gamma.

Enzyme Numbers (IUBMB) for NFX1 Gene

Gene Ontology (GO) - Molecular Function for NFX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IDA 7964459
GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding IDA 7964459
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding TAS 7964459
genes like me logo Genes that share ontologies with NFX1: view
genes like me logo Genes that share phenotypes with NFX1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NFX1

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NFX1 Gene

Localization for NFX1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NFX1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NFX1 gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 5

Gene Ontology (GO) - Cellular Components for NFX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
GO:0005829 cytosol IDA --
GO:0005886 plasma membrane IDA --
genes like me logo Genes that share ontologies with NFX1: view

Pathways & Interactions for NFX1 Gene

genes like me logo Genes that share pathways with NFX1: view

Pathways by source for NFX1 Gene

Gene Ontology (GO) - Biological Process for NFX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 7964459
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter TAS 7964459
GO:0006954 inflammatory response TAS 7964459
genes like me logo Genes that share ontologies with NFX1: view

No data available for SIGNOR curated interactions for NFX1 Gene

Transcripts for NFX1 Gene

Unigene Clusters for NFX1 Gene

Nuclear transcription factor, X-box binding 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for NFX1

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NFX1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13a · 13b · 13c ^ 14 ^ 15a · 15b
SP1: -
SP2: -
SP3: - -
SP4:
SP5: - -
SP6: - -
SP7:
SP8:
SP9:

Relevant External Links for NFX1 Gene

GeneLoc Exon Structure for
NFX1
ECgene alternative splicing isoforms for
NFX1

Expression for NFX1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NFX1 Gene

Protein differential expression in normal tissues from HIPED for NFX1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (22.5), Heart (14.5), Testis (9.2), and Placenta (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NFX1 Gene



Protein tissue co-expression partners for NFX1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NFX1 Gene:

NFX1

SOURCE GeneReport for Unigene cluster for NFX1 Gene:

Hs.413074

Evidence on tissue expression from TISSUES for NFX1 Gene

  • Nervous system(4.4)
  • Eye(4.1)
  • Skin(2)
genes like me logo Genes that share expression patterns with NFX1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NFX1 Gene

Orthologs for NFX1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NFX1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NFX1 34 35
  • 99.58 (n)
dog
(Canis familiaris)
Mammalia NFX1 34 35
  • 92.24 (n)
cow
(Bos Taurus)
Mammalia NFX1 34 35
  • 90.62 (n)
mouse
(Mus musculus)
Mammalia Nfx1 34 16 35
  • 87.64 (n)
rat
(Rattus norvegicus)
Mammalia Nfx1 34
  • 87.34 (n)
oppossum
(Monodelphis domestica)
Mammalia NFX1 35
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NFX1 35
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves NFX1 34
  • 66.76 (n)
lizard
(Anolis carolinensis)
Reptilia NFX1 35
  • 59 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nfx1 34
  • 63.95 (n)
Str.18256 34
zebrafish
(Danio rerio)
Actinopterygii LOC562071 34
  • 59.52 (n)
NFX1 35
  • 51 (a)
OneToOne
Dr.16086 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10796 34
fruit fly
(Drosophila melanogaster)
Insecta stc 36 34 35
  • 49.16 (n)
CG15011 36
  • 32 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008728 34
  • 48.9 (n)
worm
(Caenorhabditis elegans)
Secernentea nfx-1 34 35
  • 47.56 (n)
C16A3.7 36
  • 40 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes FAP1 34 35
  • 47.09 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E08317g 34
  • 46.92 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL213W 34
  • 46.81 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons NFXL1 34
  • 47.03 (n)
rice
(Oryza sativa)
Liliopsida Os06g0252300 34
  • 47.49 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPCC18.03 34
  • 47.58 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1841 35
  • 36 (a)
OneToOne
Species where no ortholog for NFX1 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NFX1 Gene

ENSEMBL:
Gene Tree for NFX1 (if available)
TreeFam:
Gene Tree for NFX1 (if available)

Paralogs for NFX1 Gene

Paralogs for NFX1 Gene

genes like me logo Genes that share paralogs with NFX1: view

Variants for NFX1 Gene

Sequence variations from dbSNP and Humsavar for NFX1 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000017569 -- 33,334,869(+) ACTTT(C/T)TATAA intron-variant
rs1000033349 -- 33,293,619(+) CACAT(A/G)GTTCT intron-variant
rs1000101564 -- 33,363,557(+) AGGAT(C/T)ACTGG intron-variant
rs1000135554 -- 33,297,761(+) TGATA(A/G)TTTGC intron-variant
rs1000231708 -- 33,307,537(+) AAAGG(C/T)CAAGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NFX1 Gene

Variant ID Type Subtype PubMed ID
esv3576648 CNV gain 25503493
nsv1024207 CNV gain 25217958
nsv614146 CNV gain 21841781
nsv6524 CNV deletion 18451855
nsv8439 CNV loss 18304495
nsv950855 CNV deletion 24416366
nsv951697 CNV deletion 24416366

Variation tolerance for NFX1 Gene

Residual Variation Intolerance Score: 16.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.89; 59.18% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NFX1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NFX1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NFX1 Gene

Disorders for NFX1 Gene

Relevant External Links for NFX1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NFX1

No disorders were found for NFX1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NFX1 Gene

Publications for NFX1 Gene

  1. A novel cysteine-rich sequence-specific DNA-binding protein interacts with the conserved X-box motif of the human major histocompatibility complex class II genes via a repeated Cys-His domain and functions as a transcriptional repressor. (PMID: 7964459) Song Z. … Ono S.J. (J. Exp. Med. 1994) 2 3 4 22 64
  2. NFX1-123 and poly(A) binding proteins synergistically augment activation of telomerase in human papillomavirus type 16 E6-expressing cells. (PMID: 17267499) Katzenellenbogen R.A. … Galloway D.A. (J. Virol. 2007) 3 4 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. Identification of a novel telomerase repressor that interacts with the human papillomavirus type-16 E6/E6-AP complex. (PMID: 15371341) Gewin L. … Galloway D.A. (Genes Dev. 2004) 3 4 64
  5. RING fingers mediate ubiquitin-conjugating enzyme (E2)-dependent ubiquitination. (PMID: 10500182) Lorick K.L. … Weissman A.M. (Proc. Natl. Acad. Sci. U.S.A. 1999) 3 4 64

Products for NFX1 Gene

Sources for NFX1 Gene

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