FUBP1 Gene (Protein Coding)

Far Upstream Element Binding Protein 1

GC01M077944
GIFtS:
38
The protein encoded by this gene is a single stranded DNA-binding protein that binds to multiple DNA elements, including the far upstream element (FUSE) located upstream of c-myc. Binding to FUSE occurs on the non-coding strand, and is important to the regulation of c-myc in undifferentiated cells. This protein contains three domains, an amphipathic helix N-terminal domain, a D... See more...

Aliases for FUBP1 Gene

Aliases for FUBP1 Gene

  • Far Upstream Element Binding Protein 1 2 3 5
  • FBP 2 3 4
  • Far Upstream Element (FUSE) Binding Protein 1 2 3
  • Far Upstream Element-Binding Protein 1 3 4
  • FUSE Binding Protein 1 2 3
  • DNA Helicase V 3 4
  • HDH V 3 4
  • Epididymis Secretory Sperm Binding Protein 3
  • FUSE-Binding Protein 1 4
  • FUBP1 5
  • FUBP 3

External Ids for FUBP1 Gene

Previous HGNC Symbols for FUBP1 Gene

  • FUBP

Previous GeneCards Identifiers for FUBP1 Gene

  • GC01M078564
  • GC01M077358
  • GC01M077800
  • GC01M077834
  • GC01M078124
  • GC01M078400
  • GC01M076545

Summaries for FUBP1 Gene

Entrez Gene Summary for FUBP1 Gene

  • The protein encoded by this gene is a single stranded DNA-binding protein that binds to multiple DNA elements, including the far upstream element (FUSE) located upstream of c-myc. Binding to FUSE occurs on the non-coding strand, and is important to the regulation of c-myc in undifferentiated cells. This protein contains three domains, an amphipathic helix N-terminal domain, a DNA-binding central domain, and a C-terminal transactivation domain that contains three tyrosine-rich motifs. The N-terminal domain is thought to repress the activity of the C-terminal domain. This protein is also thought to bind RNA, and contains 3'-5' helicase activity with in vitro activity on both DNA-DNA and RNA-RNA duplexes. Aberrant expression of this gene has been found in malignant tissues, and this gene is important to neural system and lung development. Binding of this protein to viral RNA is thought to play a role in several viral diseases, including hepatitis C and hand, foot and mouth disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]

CIViC Summary for FUBP1 Gene

GeneCards Summary for FUBP1 Gene

FUBP1 (Far Upstream Element Binding Protein 1) is a Protein Coding gene. Diseases associated with FUBP1 include Hand, Foot And Mouth Disease and Childhood Oligodendroglioma. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and DNA-binding transcription factor activity. An important paralog of this gene is KHSRP.

UniProtKB/Swiss-Prot Summary for FUBP1 Gene

  • Regulates MYC expression by binding to a single-stranded far-upstream element (FUSE) upstream of the MYC promoter. May act both as activator and repressor of transcription.

Gene Wiki entry for FUBP1 Gene

Additional gene information for FUBP1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for FUBP1 Gene

Genomics for FUBP1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for FUBP1 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around FUBP1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for FUBP1

Top Transcription factor binding sites by QIAGEN in the FUBP1 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • E2F
  • E2F-1
  • Msx-1
  • Pax-4a

Genomic Locations for FUBP1 Gene

Genomic Locations for FUBP1 Gene
chr1:77,944,055-77,979,435
(GRCh38/hg38)
Size:
35,381 bases
Orientation:
Minus strand
chr1:78,409,740-78,444,794
(GRCh37/hg19)
Size:
35,055 bases
Orientation:
Minus strand

Genomic View for FUBP1 Gene

Genes around FUBP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FUBP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FUBP1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for FUBP1 Gene

Proteins for FUBP1 Gene

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  • Protein details for FUBP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96AE4-FUBP1_HUMAN
    Recommended name:
    Far upstream element-binding protein 1
    Protein Accession:
    Q96AE4
    Secondary Accessions:
    • Q12828

    Protein attributes for FUBP1 Gene

    Size:
    644 amino acids
    Molecular mass:
    67560 Da
    Quaternary structure:
    • Found in a complex with PUF60 and far upstream element (FUSE) DNA segment. Interacts with PUF60 and JTV1.

    Three dimensional structures from OCA and Proteopedia for FUBP1 Gene

    Alternative splice isoforms for FUBP1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for FUBP1 Gene

Protein Expression for FUBP1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for FUBP1 Gene

  • Ubiquitinated. This targets the protein for proteasome-mediated degradation.
  • Ubiquitination at Lys64, Lys312, and Lys425
  • Modification sites at PhosphoSitePlus

Other Protein References for FUBP1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for FUBP1 Gene

Domains & Families for FUBP1 Gene

Gene Families for FUBP1 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for FUBP1 Gene

InterPro:
Blocks:
  • Collagen triple helix repeat
  • KH, type 1
ProtoNet:

Suggested Antigen Peptide Sequences for FUBP1 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ53425, highly similar to Far upstream element-binding protein 1 (B4DT31_HUMAN)
  • cDNA FLJ61021, highly similar to Far upstream element-binding protein 1 (B4E0X8_HUMAN)
  • DNA helicase V (FUBP1_HUMAN)
  • FUBP1 protein (Q6PJY1_HUMAN)
genes like me logo Genes that share domains with FUBP1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for FUBP1 Gene

Function for FUBP1 Gene

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Molecular function for FUBP1 Gene

UniProtKB/Swiss-Prot Function:
Regulates MYC expression by binding to a single-stranded far-upstream element (FUSE) upstream of the MYC promoter. May act both as activator and repressor of transcription.

Phenotypes From GWAS Catalog for FUBP1 Gene

Gene Ontology (GO) - Molecular Function for FUBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003697 single-stranded DNA binding TAS 8125259
GO:0003700 DNA-binding transcription factor activity TAS 8125259
GO:0003723 RNA binding IEA,HDA 22658674
genes like me logo Genes that share ontologies with FUBP1: view
genes like me logo Genes that share phenotypes with FUBP1: view

Animal Models for FUBP1 Gene

MGI Knock Outs for FUBP1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

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Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for FUBP1 Gene

Localization for FUBP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FUBP1 Gene

Nucleus.

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 FUBP1 gene
Compartment Confidence
nucleus 5
extracellular 2
cytoskeleton 2
cytosol 2
plasma membrane 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for FUBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 19087307
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IBA 21873635
genes like me logo Genes that share ontologies with FUBP1: view

Pathways & Interactions for FUBP1 Gene

PathCards logo

SuperPathways for FUBP1 Gene

No Data Available

SIGNOR curated interactions for FUBP1 Gene

Activates:
Inactivates:
Is activated by:

Gene Ontology (GO) - Biological Process for FUBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription by RNA polymerase II TAS 8125259
GO:0010468 regulation of gene expression IBA 21873635
GO:0010628 positive regulation of gene expression IDA 19087307
GO:0045944 positive regulation of transcription by RNA polymerase II IBA 21873635
genes like me logo Genes that share ontologies with FUBP1: view

No data available for Pathways by source for FUBP1 Gene

Drugs & Compounds for FUBP1 Gene

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  1. Drug

(3) Drugs for FUBP1 Gene - From: DrugBank and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Sacituzumab govitecan Approved, Investigational Pharma Target, inhibitor 0
Irofulven Investigational Pharma Target 20
genes like me logo Genes that share compounds with FUBP1: view

Transcripts for FUBP1 Gene

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mRNA/cDNA for FUBP1 Gene

5 REFSEQ mRNAs :
18 NCBI additional mRNA sequence :
13 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for FUBP1

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for FUBP1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19a · 19b · 19c ^ 20 ^ 21a ·
SP1: - - - - - -
SP2: - - - -
SP3: - - -
SP4: - - -
SP5:
SP6:
SP7:

ExUns: 21b ^ 22a · 22b ^ 23 ^ 24a · 24b
SP1:
SP2:
SP3:
SP4: -
SP5:
SP6: -
SP7:

Relevant External Links for FUBP1 Gene

GeneLoc Exon Structure for
FUBP1

Expression for FUBP1 Gene

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  1. Primer
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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for FUBP1 Gene

mRNA expression in normal human tissues for FUBP1 Gene
mRNA expression by BioGPS for FUBP1 GenemRNA expression by GTEx for FUBP1 Gene

Protein differential expression in normal tissues from HIPED for FUBP1 Gene

This gene is overexpressed in Lymph node (20.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for FUBP1 Gene



Protein tissue co-expression partners for FUBP1 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for FUBP1

SOURCE GeneReport for Unigene cluster for FUBP1 Gene:

Hs.567380

Evidence on tissue expression from TISSUES for FUBP1 Gene

  • Nervous system(4.7)
  • Intestine(2.6)
  • Kidney(2.6)
  • Skin(2.6)
  • Liver(2.6)
  • Lymph node(2.5)
  • Heart(2.4)
  • Muscle(2.4)
  • Bone marrow(2.4)
  • Lung(2.2)
  • Blood(2)
  • Spleen(2)
genes like me logo Genes that share expression patterns with FUBP1: 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 FUBP1 Gene

Orthologs for FUBP1 Gene

This gene was present in the common ancestor of animals.

Orthologs for FUBP1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia FUBP1 31
  • 97 (a)
 OneToOne
Cow
(Bos Taurus)
 Mammalia FUBP1 30 31
  • 95.23 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia FUBP1 30 31
  • 95.22 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Fubp1 30
  • 91.65 (n)
Mouse
(Mus musculus)
 Mammalia Fubp1 30 17 31
  • 91.44 (n)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia FUBP1 31
  • 91 (a)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia FUBP1 31
  • 90 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves FUBP1 30 31
  • 84.18 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia FUBP1 31
  • 83 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia fubp1 30
  • 80.22 (n)
MGC75632 30
Zebrafish
(Danio rerio)
 Actinopterygii fubp1 30 31
  • 72.86 (n)
 OneToOne
mpzf637-1-001611 30
Fruit Fly
(Drosophila melanogaster)
 Insecta Psi 31
  • 24 (a)
 OneToMany
Worm
(Caenorhabditis elegans)
 Secernentea C12D8.1b 32
  • 38 (a)
C12D8.1a 32
  • 37 (a)
C36E6.1a 32
  • 32 (a)
C36E6.1b 32
  • 32 (a)
C12D8.1 31
  • 28 (a)
 ManyToMany
ZK418.9 31 32
  • 27 (a)
 ManyToMany
C36E6.1 31
  • 24 (a)
 ManyToMany
M01A10.1 31 32
  • 22 (a)
 ManyToMany
Sea Squirt
(Ciona savignyi)
 Ascidiacea -- 31
  • 35 (a)
 ManyToMany
-- 31
  • 33 (a)
 ManyToMany
-- 31
  • 21 (a)
 ManyToMany
Species where no ortholog for FUBP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • 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 (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for FUBP1 Gene

ENSEMBL:
Gene Tree for FUBP1 (if available)
TreeFam:
Gene Tree for FUBP1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for FUBP1: view image

Paralogs for FUBP1 Gene

Paralogs for FUBP1 Gene

(4) SIMAP similar genes for FUBP1 Gene using alignment to 5 proteins:

  • FUBP1_HUMAN
  • B4DT31_HUMAN
  • C9JSZ1_HUMAN
  • E9PEB5_HUMAN
  • Q6PJY1_HUMAN
genes like me logo Genes that share paralogs with FUBP1: view

Variants for FUBP1 Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for FUBP1 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
777912 Benign: not provided 77,978,951(-) A/G NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT
783289 Benign: not provided 77,962,911(-) G/A NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT
rs138606412 Not Provided: not specified 77,968,172(-) T/G MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT
rs150162389 Not Provided: not specified 77,956,689(-) T/C MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT
rs2274257 Benign: not specified 77,963,723(-) G/C INTRON_VARIANT

Additional dbSNP identifiers (rs#s) for FUBP1 Gene

Structural Variations from Database of Genomic Variants (DGV) for FUBP1 Gene

Variant ID Type Subtype PubMed ID
nsv518855 CNV loss 19592680

Variation tolerance for FUBP1 Gene

Residual Variation Intolerance Score: 9.86% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.36; 26.82% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for FUBP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FUBP1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FUBP1 Gene

Disorders for FUBP1 Gene

MalaCards: The human disease database

(9) MalaCards diseases for FUBP1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hand, foot and mouth disease
  • vesicular stomatitis and exanthem
childhood oligodendroglioma
  • pediatric oligodendroglioma
temporal lobe neoplasm
  • malignant neoplasm of temporal lobe
oligodendroglioma
  • oligodendroglial neoplasm
adult oligodendroglioma
  • adult brain oligodendroglioma
- elite association - COSMIC cancer census association via MalaCards
Search FUBP1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for FUBP1

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with FUBP1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FUBP1 Gene

Publications for FUBP1 Gene

  1. A sequence-specific, single-strand binding protein activates the far upstream element of c-myc and defines a new DNA-binding motif. (PMID: 8125259) Duncan R … Levens D (Genes & development 1994) 2 3 4 23
  2. Structure and dynamics of KH domains from FBP bound to single-stranded DNA. (PMID: 11875576) Braddock DT … Clore GM (Nature 2002) 3 4 23
  3. Identification of human DNA helicase V with the far upstream element-binding protein. (PMID: 11222755) Vindigni A … Falaschi A (Nucleic acids research 2001) 3 4 23
  4. The FBP interacting repressor targets TFIIH to inhibit activated transcription. (PMID: 10882074) Liu J … Levens D (Molecular cell 2000) 3 4 23
  5. Quantitative characterization of the interactions among c-myc transcriptional regulators FUSE, FBP, and FIR. (PMID: 20420426) Hsiao HH … Braddock DT (Biochemistry 2010) 3 23

ExternalLinks

View latest publications for FUBP1 gene in Mastermind

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Sources for FUBP1 Gene