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Aliases for NDNF Gene

Aliases for NDNF Gene

  • Neuron Derived Neurotrophic Factor 2 3 5
  • C4orf31 3 4
  • Fibronectin Type-III Domain-Containing Protein C4orf31 3
  • Chromosome 4 Open Reading Frame 31 2
  • Neuron-Derived Neurotrophic Factor 4
  • Protein NDNF 3
  • NORD 3

External Ids for NDNF Gene

Previous HGNC Symbols for NDNF Gene

  • C4orf31

Previous GeneCards Identifiers for NDNF Gene

  • GC04M121957
  • GC04M121958
  • GC04M121962

Summaries for NDNF Gene

GeneCards Summary for NDNF Gene

NDNF (Neuron Derived Neurotrophic Factor) is a Protein Coding gene. Diseases associated with NDNF include Pancreatic Cholera. GO annotations related to this gene include heparin binding and glycosaminoglycan binding.

UniProtKB/Swiss-Prot for NDNF Gene

  • Promotes matrix assembly and cell adhesiveness (By similarity). Promotes neuron migration, growth and survival as well as neurite outgrowth (PubMed:20969804). Promotes endothelial cell survival, vessel formation and plays an important role in the process of revascularization through NOS3-dependent mechanisms (PubMed:24706764).

Additional gene information for NDNF Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NDNF Gene

Genomics for NDNF Gene

Regulatory Elements for NDNF Gene

Enhancers for NDNF 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
GH04H121070 0.9 ENCODE 28.7 +0.2 210 5 ZSCAN4 ZNF2 GLIS2 ZNF366 EGR2 ZNF202 SP3 REST ZNF398 ZNF843 NDNF EXOSC9 LOC105377400
GH04H121199 1.3 Ensembl ENCODE dbSUPER 11 -127.3 -127284 1 CTCF TBL1XR1 RBBP5 EBF1 BATF RELA GATA3 EED SMC3 ATF7 TNIP3 NDNF RNU6-948P GC04M121193
GH04H121153 1.3 FANTOM5 Ensembl ENCODE 9.2 -82.3 -82321 4 JUN ETV1 BATF POLR2A ZBTB48 FOS ZNF600 PRDM10 NFE2 RUNX3 TNIP3 RNU6-948P NDNF GC04M121193 ENSG00000271302
GH04H121138 1 Ensembl ENCODE 6.7 -66.6 -66550 2 ZBED1 NR2F1 JUNB BATF PRDM6 BCL11A EED IKZF1 ZNF629 ATF7 TNIP3 NDNF ENSG00000271302 RNU6-948P GC04M121193
GH04H121220 0.5 ENCODE dbSUPER 7.1 -147.3 -147278 0 RNU6-948P NDNF TNIP3 GC04M121193
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NDNF on UCSC Golden Path with GeneCards custom track

Promoters for NDNF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000172597 821 1600 CTCF LEF1 ZSCAN4 FEZF1 ZIC2 ZNF2 ZFHX2 GLIS2 ZNF366 ZBTB48

Genomic Location for NDNF Gene

Chromosome:
4
Start:
121,035,613 bp from pter
End:
121,073,021 bp from pter
Size:
37,409 bases
Orientation:
Minus strand

Genomic View for NDNF Gene

Genes around NDNF on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for NDNF Gene

Proteins for NDNF Gene

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

    Protein Symbol:
    Q8TB73-NDNF_HUMAN
    Recommended name:
    Protein NDNF
    Protein Accession:
    Q8TB73
    Secondary Accessions:
    • A8K0Q0
    • Q6UWE5
    • Q9H5P7

    Protein attributes for NDNF Gene

    Size:
    568 amino acids
    Molecular mass:
    64673 Da
    Quaternary structure:
    • Binds heparin and chondroitin sulfate.
    SequenceCaution:
    • Sequence=BAB15573.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB15573.1; Type=Frameshift; Positions=364, 435; Evidence={ECO:0000305};

neXtProt entry for NDNF Gene

Post-translational modifications for NDNF Gene

Other Protein References for NDNF Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NDNF Gene

Domains & Families for NDNF Gene

Gene Families for NDNF Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for NDNF Gene

Suggested Antigen Peptide Sequences for NDNF Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NDNF: view

No data available for UniProtKB/Swiss-Prot for NDNF Gene

Function for NDNF Gene

Molecular function for NDNF Gene

UniProtKB/Swiss-Prot Function:
Promotes matrix assembly and cell adhesiveness (By similarity). Promotes neuron migration, growth and survival as well as neurite outgrowth (PubMed:20969804). Promotes endothelial cell survival, vessel formation and plays an important role in the process of revascularization through NOS3-dependent mechanisms (PubMed:24706764).
UniProtKB/Swiss-Prot Induction:
Up-regulated by hypoxia (at protein level).

Phenotypes From GWAS Catalog for NDNF Gene

Gene Ontology (GO) - Molecular Function for NDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005539 glycosaminoglycan binding IEA,ISS --
GO:0008201 heparin binding ISS,IEA --
genes like me logo Genes that share ontologies with NDNF: view
genes like me logo Genes that share phenotypes with NDNF: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for NDNF
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Localization for NDNF Gene

Subcellular locations from UniProtKB/Swiss-Prot for NDNF Gene

Secreted.

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 NDNF gene
Compartment Confidence
extracellular 5
golgi apparatus 2
mitochondrion 1
peroxisome 1
nucleus 1
endoplasmic reticulum 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IDA,IEA 20969804
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005622 intracellular IEA --
GO:0031012 extracellular matrix ISS --
genes like me logo Genes that share ontologies with NDNF: view

Pathways & Interactions for NDNF Gene

No Data Available

Interacting Proteins for NDNF Gene

Gene Ontology (GO) - Biological Process for NDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis IDA 24706764
GO:0001764 neuron migration IDA 20969804
GO:0002931 response to ischemia IEA --
GO:0007263 nitric oxide mediated signal transduction IDA 24706764
GO:0007399 nervous system development IEA --
genes like me logo Genes that share ontologies with NDNF: view

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

Drugs & Compounds for NDNF Gene

No Compound Related Data Available

Transcripts for NDNF Gene

Unigene Clusters for NDNF Gene

Neuron-derived neurotrophic factor:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for NDNF
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d
SP1: - - - - -
SP2: - - -
SP3: - -
SP4:

Relevant External Links for NDNF Gene

GeneLoc Exon Structure for
NDNF
ECgene alternative splicing isoforms for
NDNF

Expression for NDNF Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NDNF Gene

This gene is overexpressed in Lung (x9.4) and Ovary (x6.3).

Protein differential expression in normal tissues from HIPED for NDNF Gene

This gene is overexpressed in Amniocyte (62.5).

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



Protein tissue co-expression partners for NDNF Gene

NURSA nuclear receptor signaling pathways regulating expression of NDNF Gene:

NDNF

SOURCE GeneReport for Unigene cluster for NDNF Gene:

Hs.709520

Evidence on tissue expression from TISSUES for NDNF Gene

  • Lung(4.4)
  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with NDNF: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NDNF Gene

Orthologs for NDNF Gene

This gene was present in the common ancestor of animals.

Orthologs for NDNF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NDNF 33 34
  • 99.24 (n)
cow
(Bos Taurus)
Mammalia C6H4ORF31 34
  • 93 (a)
OneToOne
NDNF 33
  • 87.73 (n)
dog
(Canis familiaris)
Mammalia NDNF 33 34
  • 90.11 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NDNF 34
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NDNF 34
  • 88 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ndnf 16 34 33
  • 85.61 (n)
rat
(Rattus norvegicus)
Mammalia Ndnf 33
  • 84.59 (n)
chicken
(Gallus gallus)
Aves NDNF 34 33
  • 80.6 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NDNF 34
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ndnf 33
  • 76.86 (n)
Str.14053 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.24158 33
zebrafish
(Danio rerio)
Actinopterygii ndnf 33 34
  • 70.52 (n)
worm
(Caenorhabditis elegans)
Secernentea ndnf-1 34
  • 21 (a)
OneToOne
Species where no ortholog for NDNF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 NDNF Gene

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

Paralogs for NDNF Gene

No data available for Paralogs for NDNF Gene

Variants for NDNF Gene

Sequence variations from dbSNP and Humsavar for NDNF Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type
rs1000034372 -- 121,048,237(+) AATAG(C/T)TAGAA intron-variant
rs1000088347 -- 121,051,530(+) ATTCA(C/T)TGTAT intron-variant
rs1000089708 -- 121,038,438(+) CAAAG(C/T)ATAGA intron-variant
rs1000190836 -- 121,072,419(+) CAGGC(A/G)CCTGG upstream-variant-2KB, utr-variant-5-prime
rs1000213819 -- 121,068,863(+) GTCAT(C/T)ATTAT intron-variant

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

Variant ID Type Subtype PubMed ID
esv2656850 CNV deletion 23128226
nsv507193 OTHER sequence alteration 20534489

Variation tolerance for NDNF Gene

Residual Variation Intolerance Score: 68.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.96; 49.38% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NDNF Gene

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

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

Disorders for NDNF Gene

MalaCards: The human disease database

(1) MalaCards diseases for NDNF Gene - From: DISEASES

Disorder Aliases PubMed IDs
pancreatic cholera
  • excessive vasoactive intestinal peptide secretion
- elite association - COSMIC cancer census association via MalaCards
Search NDNF in MalaCards View complete list of genes associated with diseases

Relevant External Links for NDNF

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NDNF
genes like me logo Genes that share disorders with NDNF: view

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

Publications for NDNF Gene

  1. Spatio-temporal expression of a novel neuron-derived neurotrophic factor (NDNF) in mouse brains during development. (PMID: 20969804) Kuang XL … Sun GT (BMC neuroscience 2010) 2 3 4 60
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 2 3 4 60
  3. Neuron-derived neurotrophic factor functions as a novel modulator that enhances endothelial cell function and revascularization processes. (PMID: 24706764) Ohashi K … Ouchi N (The Journal of biological chemistry 2014) 3 4 60
  4. Differential effects of Tat proteins derived from HIV-1 subtypes B and recombinant CRF02_AG on human brain microvascular endothelial cells: implications for blood-brain barrier dysfunction. (PMID: 24667918) Woollard SM … Kanmogne GD (Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism 2014) 3 60
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 60

Products for NDNF Gene

Sources for NDNF Gene

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