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Aliases for NFXL1 Gene

Aliases for NFXL1 Gene

  • Nuclear Transcription Factor, X-Box Binding Like 1 2 3 5
  • Ovarian Zinc Finger Protein 2 3 4
  • HOZFP 3 4
  • OZFP 3 4
  • Cytoplasm-Distribution Zinc Finger Protein 3
  • NF-X1-Type Zinc Finger Protein NFXL1 3
  • Up-Regulated In Colon Cancer 5 3
  • CDZFP 3
  • URCC5 3

External Ids for NFXL1 Gene

Previous GeneCards Identifiers for NFXL1 Gene

  • GC00U991226
  • GC04M047691
  • GC04M047544
  • GC04M047168

Summaries for NFXL1 Gene

GeneCards Summary for NFXL1 Gene

NFXL1 (Nuclear Transcription Factor, X-Box Binding Like 1) is a Protein Coding gene. Diseases associated with NFXL1 include Specific Language Impairment and Speech And Communication Disorders. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding. An important paralog of this gene is NFX1.

Additional gene information for NFXL1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NFXL1 Gene

Genomics for NFXL1 Gene

GeneHancer (GH) Regulatory Elements for NFXL1 Gene

Promoters and enhancers for NFXL1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH04J047913 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 713.5 +0.4 414 2.3 PKNOX1 SMAD1 ARID4B SIN3A DMAP1 IRF4 YY1 POLR2B ZNF766 CBX5 NFXL1 LOC101927157 NIPAL1 CNGA1
GH04J047836 Promoter/Enhancer 1.3 Ensembl ENCODE 55.1 +77.5 77466 1.6 ELF3 PKNOX1 ARID4B SIN3A IRF4 ZNF48 RAD21 ZNF335 GLIS2 ZNF143 CORIN NFXL1 CNGA1 LOC101927179
GH04J048014 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 23.7 -104.5 -104489 8.7 ATF1 FOXA2 SIN3A DMAP1 ZNF48 YY1 GLIS2 FOS ATF7 ZNF202 CNGA1 NIPAL1 NFXL1 RNU6-838P GC04P048104
GH04J047838 Enhancer 0.8 Ensembl ENCODE 54.4 +75.4 75370 0.6 CTCF TRIM22 ATF2 IRF4 RAD21 EED IKZF1 ZNF143 ATF7 BCLAF1 CORIN GC04P047839 NFXL1 CNGA1 LOC101927179
GH04J048775 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 16.8 -863.8 -863767 6.8 PKNOX1 FOXA2 SMAD1 ARID4B SIN3A FEZF1 YY1 POLR2B ZNF766 ZNF207 FRYL OCIAD1 SLAIN2 NFXL1 TEC SLC10A4 GC04P048658
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NFXL1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NFXL1 gene promoter:
  • Lmo2
  • IRF-2
  • E2F-1
  • E2F
  • c-Myc
  • Max1
  • p53
  • USF1
  • USF-1
  • MyoD

Genomic Locations for NFXL1 Gene

Genomic Locations for NFXL1 Gene
67,435 bases
Minus strand
67,397 bases
Minus strand

Genomic View for NFXL1 Gene

Genes around NFXL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NFXL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NFXL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NFXL1 Gene

Proteins for NFXL1 Gene

  • Protein details for NFXL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    NF-X1-type zinc finger protein NFXL1
    Protein Accession:
    Secondary Accessions:
    • B1Q2K1
    • Q86VG1
    • Q8WVH1

    Protein attributes for NFXL1 Gene

    911 amino acids
    Molecular mass:
    101339 Da
    Quaternary structure:
    No Data Available
    • Sequence=BAD18459.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for NFXL1 Gene


neXtProt entry for NFXL1 Gene

Post-translational modifications for NFXL1 Gene

  • Ubiquitination at isoforms=766, isoforms=759, Lys693, Lys661, isoforms=2604, isoforms=2588, isoforms=2534, isoforms=2402, and Lys238
  • Modification sites at PhosphoSitePlus

Other Protein References for NFXL1 Gene

No data available for DME Specific Peptides for NFXL1 Gene

Domains & Families for NFXL1 Gene

Gene Families for NFXL1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transcription factors

Suggested Antigen Peptide Sequences for NFXL1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the NFX1 family.
  • Belongs to the NFX1 family.
genes like me logo Genes that share domains with NFXL1: view

Function for NFXL1 Gene

Gene Ontology (GO) - Molecular Function for NFXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA --
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding ISM 19274049
GO:0001078 transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding IBA --
GO:0003700 DNA binding transcription factor activity IEA --
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with NFXL1: view
genes like me logo Genes that share phenotypes with NFXL1: view

Animal Models for NFXL1 Gene

MGI Knock Outs for NFXL1:
  • Nfxl1 Nfxl1<tm1a(EUCOMM)Wtsi>

Animal Model Products

miRNA for NFXL1 Gene

miRTarBase miRNAs that target NFXL1

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NFXL1 Gene

Localization for NFXL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NFXL1 Gene

Membrane; Single-pass membrane protein.

Subcellular locations from

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 NFXL1 gene
Compartment Confidence
nucleus 5
mitochondrion 1
peroxisome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NFXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
GO:0016020 membrane IEA,HDA 19946888
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with NFXL1: view

Pathways & Interactions for NFXL1 Gene

SuperPathways for NFXL1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NFXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription by RNA polymerase II IEA --
GO:0006366 transcription by RNA polymerase II IBA --
genes like me logo Genes that share ontologies with NFXL1: view

No data available for Pathways by source and SIGNOR curated interactions for NFXL1 Gene

Drugs & Compounds for NFXL1 Gene

No Compound Related Data Available

Transcripts for NFXL1 Gene

mRNA/cDNA for NFXL1 Gene

Unigene Clusters for NFXL1 Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NFXL1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP4: - -
SP5: -

Relevant External Links for NFXL1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NFXL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NFXL1 Gene

Protein differential expression in normal tissues from HIPED for NFXL1 Gene

This gene is overexpressed in Testis (17.8), Plasma (12.0), Placenta (11.3), and Pancreas (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NFXL1 Gene

Protein tissue co-expression partners for NFXL1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NFXL1 Gene:


SOURCE GeneReport for Unigene cluster for NFXL1 Gene:


Evidence on tissue expression from TISSUES for NFXL1 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with NFXL1: view

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 NFXL1 Gene

Orthologs for NFXL1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NFXL1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NFXL1 34 33
  • 99.41 (n)
(Bos Taurus)
Mammalia NFXL1 34 33
  • 91.29 (n)
(Canis familiaris)
Mammalia NFXL1 34 33
  • 90.83 (n)
(Mus musculus)
Mammalia Nfxl1 16 34 33
  • 87.52 (n)
(Rattus norvegicus)
Mammalia Nfxl1 33
  • 86.57 (n)
(Monodelphis domestica)
Mammalia NFXL1 34
  • 81 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 80 (a)
-- 34
  • 68 (a)
(Gallus gallus)
Aves NFXL1 34 33
  • 75.5 (n)
(Anolis carolinensis)
Reptilia NFXL1 34
  • 76 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nfxl1 33
  • 70.96 (n)
(Danio rerio)
Actinopterygii nfxl1 34 33
  • 61.71 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG15011 34 33
  • 49.79 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005362 33
  • 47.47 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes FAP1 34
  • 20 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons ATNFXL2 33
  • 49.63 (n)
(Oryza sativa)
Liliopsida Os01g0158900 33
  • 48.68 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 43 (a)
Species where no ortholog for NFXL1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for NFXL1 Gene

Gene Tree for NFXL1 (if available)
Gene Tree for NFXL1 (if available)
Evolutionary constrained regions (ECRs) for NFXL1: view image

Paralogs for NFXL1 Gene

Paralogs for NFXL1 Gene

(2) SIMAP similar genes for NFXL1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with NFXL1: view

Variants for NFXL1 Gene

Sequence variations from dbSNP and Humsavar for NFXL1 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs1000055505 -- 47,901,701(-) AAAA/AAA intron_variant
rs1000071439 -- 47,878,840(-) T/C intron_variant
rs1000088810 -- 47,866,792(-) T/C intron_variant
rs1000130155 -- 47,914,757(-) G/C/T upstream_transcript_variant
rs1000242218 -- 47,850,611(-) C/A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NFXL1 Gene

Variant ID Type Subtype PubMed ID
dgv5202n100 CNV gain 25217958
nsv4328 CNV deletion 18451855
nsv477067 CNV novel sequence insertion 20440878
nsv594118 CNV loss 21841781
nsv829924 CNV gain 17160897

Variation tolerance for NFXL1 Gene

Residual Variation Intolerance Score: 30.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 14.41; 96.38% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NFXL1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NFXL1 Gene

Disorders for NFXL1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for NFXL1 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
specific language impairment
speech and communication disorders
  • communication disorder
- elite association - COSMIC cancer census association via MalaCards
Search NFXL1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NFXL1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with NFXL1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NFXL1 Gene

Publications for NFXL1 Gene

  1. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 44 58
  2. Structure and putative function of NFX1-like proteins in plants. (PMID: 20522174) Müssig C … Lisso J (Plant biology (Stuttgart, Germany) 2010) 2 3 58
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 58
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for NFXL1 Gene

Sources for NFXL1 Gene

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