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Aliases for PLXNA4 Gene

Aliases for PLXNA4 Gene

  • Plexin A4 2 3 5
  • PLXNA4A 3 4
  • PLXNA4B 3 4
  • Plexin A4, A 2
  • Plexin A4, B 2
  • Plexin-A4 3
  • FAYV2820 3
  • PRO34003 3
  • KIAA1550 4
  • PLEXA4 3

External Ids for PLXNA4 Gene

Previous HGNC Symbols for PLXNA4 Gene

  • PLXNA4A
  • PLXNA4B

Previous GeneCards Identifiers for PLXNA4 Gene

  • GC07U990159
  • GC07M131215
  • GC07M131228
  • GC07M131269
  • GC07M131467
  • GC07M131720
  • GC07M126124

Summaries for PLXNA4 Gene

GeneCards Summary for PLXNA4 Gene

PLXNA4 (Plexin A4) is a Protein Coding gene. Among its related pathways are Developmental Biology and Semaphorin interactions. Gene Ontology (GO) annotations related to this gene include semaphorin receptor activity. An important paralog of this gene is PLXNA2.

UniProtKB/Swiss-Prot for PLXNA4 Gene

  • Coreceptor for SEMA3A. Necessary for signaling by class 3 semaphorins and subsequent remodeling of the cytoskeleton. Plays a role in axon guidance in the developing nervous system. Class 3 semaphorins bind to a complex composed of a neuropilin and a plexin. The plexin modulates the affinity of the complex for specific semaphorins, and its cytoplasmic domain is required for the activation of down-stream signaling events in the cytoplasm (By similarity).

Additional gene information for PLXNA4 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 PLXNA4 Gene

Genomics for PLXNA4 Gene

GeneHancer (GH) Regulatory Elements for PLXNA4 Gene

Promoters and enhancers for PLXNA4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07J132576 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 650.2 +71.5 71487 0.8 CTCF MXI1 ZNF777 ZBTB6 ZNF792 KLF17 ZIC2 ZNF2 ZNF335 ZFHX2 PLXNA4 LOC100506937 GC07P132551 GC07P132609
GH07J132650 Enhancer 0.6 ENCODE 650.7 -2.0 -1979 0.1 RXRA SIN3A DPF2 MNT REST SP1 ZNF217 CTBP1 FLJ40288 PLXNA4 GC07P132660
GH07J132410 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 12.5 +238.1 238110 0.3 PKNOX1 ATF1 KLF17 MZF1 FEZF1 ZNF335 ZNF366 ATF7 OVOL3 ZNF398 PLXNA4 LOC102724906 LOC105375511
GH07J132614 Enhancer 0.7 Ensembl ENCODE 11.9 +33.7 33679 1.2 CTCF IKZF1 SIN3A EZH2 FLJ40288 PLXNA4 GC07P132609
GH07J132575 Enhancer 0.9 FANTOM5 ENCODE 8.6 +72.9 72857 0.3 CTCF MXI1 PKNOX1 ZNF654 SUZ12 GFI1B ZBTB8A RAD21 ZNF335 POLR2A LOC100506937 PLXNA4 GC07P132551 GC07P132609
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PLXNA4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PLXNA4 gene promoter:
  • p300
  • STAT5A
  • Tal-1beta
  • E47
  • C/EBPalpha
  • AhR
  • Oct-B1
  • oct-B2
  • oct-B3
  • POU2F1

Genomic Locations for PLXNA4 Gene

Genomic Locations for PLXNA4 Gene
chr7:132,123,332-132,648,688
(GRCh38/hg38)
Size:
525,357 bases
Orientation:
Minus strand
chr7:131,808,091-132,333,447
(GRCh37/hg19)
Size:
525,357 bases
Orientation:
Minus strand

Genomic View for PLXNA4 Gene

Genes around PLXNA4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PLXNA4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PLXNA4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PLXNA4 Gene

Proteins for PLXNA4 Gene

  • Protein details for PLXNA4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HCM2-PLXA4_HUMAN
    Recommended name:
    Plexin-A4
    Protein Accession:
    Q9HCM2
    Secondary Accessions:
    • A4D1N6
    • E9PAM2
    • Q6UWC6
    • Q6ZW89
    • Q8N969
    • Q8ND00
    • Q8NEN3
    • Q9NTD4

    Protein attributes for PLXNA4 Gene

    Size:
    1894 amino acids
    Molecular mass:
    212455 Da
    Quaternary structure:
    • Interacts with NRP1 and NRP2.
    SequenceCaution:
    • Sequence=AAQ89209.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PLXNA4 Gene

    Alternative splice isoforms for PLXNA4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PLXNA4 Gene

Post-translational modifications for PLXNA4 Gene

  • Glycosylation at isoforms=1180, Asn1132, Asn1007, and Asn655
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for PLXNA4 Gene

Domains & Families for PLXNA4 Gene

Gene Families for PLXNA4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for PLXNA4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9HCM2

UniProtKB/Swiss-Prot:

PLXA4_HUMAN :
  • Belongs to the plexin family.
Family:
  • Belongs to the plexin family.
genes like me logo Genes that share domains with PLXNA4: view

Function for PLXNA4 Gene

Molecular function for PLXNA4 Gene

UniProtKB/Swiss-Prot Function:
Coreceptor for SEMA3A. Necessary for signaling by class 3 semaphorins and subsequent remodeling of the cytoskeleton. Plays a role in axon guidance in the developing nervous system. Class 3 semaphorins bind to a complex composed of a neuropilin and a plexin. The plexin modulates the affinity of the complex for specific semaphorins, and its cytoplasmic domain is required for the activation of down-stream signaling events in the cytoplasm (By similarity).
GENATLAS Biochemistry:
plexin A4,calcium-dependent cell adhesion molecule at the neuronal cell surface,receptor for the semaphorin 7A (SEMA7A)

Phenotypes From GWAS Catalog for PLXNA4 Gene

Gene Ontology (GO) - Molecular Function for PLXNA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
GO:0017154 semaphorin receptor activity IEA --
genes like me logo Genes that share ontologies with PLXNA4: view
genes like me logo Genes that share phenotypes with PLXNA4: view

Animal Models for PLXNA4 Gene

MGI Knock Outs for PLXNA4:

Animal Model Products

  • Taconic Biosciences Mouse Models for PLXNA4

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLXNA4

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PLXNA4 Gene

Localization for PLXNA4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PLXNA4 Gene

Cell membrane; Single-pass type I membrane protein.

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 PLXNA4 gene
Compartment Confidence
plasma membrane 5
extracellular 1
mitochondrion 1
peroxisome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PLXNA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002116 semaphorin receptor complex TAS 19909241
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PLXNA4: view

Pathways & Interactions for PLXNA4 Gene

genes like me logo Genes that share pathways with PLXNA4: view

Pathways by source for PLXNA4 Gene

1 Cell Signaling Technology pathway for PLXNA4 Gene

Gene Ontology (GO) - Biological Process for PLXNA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007162 negative regulation of cell adhesion IBA --
GO:0007165 signal transduction IEA --
GO:0007399 nervous system development IEA --
GO:0007411 axon guidance IEA --
GO:0008045 motor neuron axon guidance IEA --
genes like me logo Genes that share ontologies with PLXNA4: view

No data available for SIGNOR curated interactions for PLXNA4 Gene

Drugs & Compounds for PLXNA4 Gene

No Compound Related Data Available

Transcripts for PLXNA4 Gene

mRNA/cDNA for PLXNA4 Gene

(7) REFSEQ mRNAs :
(12) Additional mRNA sequences :
(10) Selected AceView cDNA sequences:
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PLXNA4 Gene

Plexin A4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLXNA4

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PLXNA4 Gene

No ASD Table

Relevant External Links for PLXNA4 Gene

GeneLoc Exon Structure for
PLXNA4
ECgene alternative splicing isoforms for
PLXNA4

Expression for PLXNA4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PLXNA4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PLXNA4 Gene

This gene is overexpressed in Fetal Brain (25.1), Brain (17.7), Frontal cortex (12.0), and Peripheral blood mononuclear cells (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PLXNA4 Gene



Protein tissue co-expression partners for PLXNA4 Gene

NURSA nuclear receptor signaling pathways regulating expression of PLXNA4 Gene:

PLXNA4

SOURCE GeneReport for Unigene cluster for PLXNA4 Gene:

Hs.511454

Evidence on tissue expression from TISSUES for PLXNA4 Gene

  • Nervous system(4.8)
  • Kidney(4)
genes like me logo Genes that share expression patterns with PLXNA4: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PLXNA4 Gene

Orthologs for PLXNA4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PLXNA4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PLXNA4 34 33
  • 99.54 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PLEX2 34
  • 97 (a)
OneToOne
PLXNA4 33
  • 91.37 (n)
dog
(Canis familiaris)
Mammalia PLXNA4 34 33
  • 91.92 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PLXNA4 34
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Plxna4 16 34 33
  • 89.54 (n)
rat
(Rattus norvegicus)
Mammalia Plxna4a 33
  • 89.51 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 82 (a)
OneToMany
-- 34
  • 81 (a)
OneToMany
-- 34
  • 68 (a)
OneToMany
chicken
(Gallus gallus)
Aves PLXNA4 34
  • 92 (a)
OneToOne
PLXNA4B 33
  • 82.24 (n)
lizard
(Anolis carolinensis)
Reptilia PLXNA4 34
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia plxna4 33
  • 73.57 (n)
zebrafish
(Danio rerio)
Actinopterygii plxna4 34 33
  • 72.64 (n)
OneToOne
Species where no ortholog for PLXNA4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for PLXNA4 Gene

ENSEMBL:
Gene Tree for PLXNA4 (if available)
TreeFam:
Gene Tree for PLXNA4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PLXNA4: view image

Paralogs for PLXNA4 Gene

Paralogs for PLXNA4 Gene

(10) SIMAP similar genes for PLXNA4 Gene using alignment to 2 proteins:

  • PLXA4_HUMAN
  • A4D1N7_HUMAN
genes like me logo Genes that share paralogs with PLXNA4: view

Variants for PLXNA4 Gene

Sequence variations from dbSNP and Humsavar for PLXNA4 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000003952 -- 132,250,333(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000004917 -- 132,564,844(-) CCCCCC/CCCCC intron_variant
rs1000005975 -- 132,578,072(-) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000010987 -- 132,194,360(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000017192 -- 132,195,689(-) T/C genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PLXNA4 Gene

Variant ID Type Subtype PubMed ID
dgv1961e212 CNV gain 25503493
esv2462922 CNV insertion 19546169
esv2662010 CNV deletion 23128226
esv2665361 CNV deletion 23128226
esv2667603 CNV deletion 23128226
esv2735160 CNV deletion 23290073
esv2735161 CNV deletion 23290073
esv2735163 CNV deletion 23290073
esv2735164 CNV deletion 23290073
esv2735165 CNV deletion 23290073
esv2735166 CNV deletion 23290073
esv2735167 CNV deletion 23290073
esv2735168 CNV deletion 23290073
esv2759564 CNV gain 17122850
esv3386177 CNV duplication 20981092
esv3449281 CNV duplication 20981092
esv3451174 CNV insertion 20981092
esv3542445 CNV deletion 23714750
esv3542447 CNV deletion 23714750
esv3615056 CNV gain 21293372
esv996570 CNV deletion 20482838
nsv1030698 CNV loss 25217958
nsv1032205 CNV gain 25217958
nsv1074552 CNV deletion 25765185
nsv1074553 CNV deletion 25765185
nsv1078598 CNV duplication 25765185
nsv1115009 CNV deletion 24896259
nsv1119552 CNV insertion 24896259
nsv1124979 CNV duplication 24896259
nsv1140204 CNV insertion 24896259
nsv1146570 CNV duplication 26484159
nsv1150041 CNV deletion 26484159
nsv1151159 CNV insertion 26484159
nsv464724 CNV loss 19166990
nsv476543 CNV novel sequence insertion 20440878
nsv478331 CNV novel sequence insertion 20440878
nsv478530 CNV novel sequence insertion 20440878
nsv507418 OTHER sequence alteration 20534489
nsv522425 CNV gain 19592680
nsv525647 CNV loss 19592680
nsv526514 CNV loss 19592680
nsv526523 CNV loss 19592680
nsv608438 CNV loss 21841781
nsv608439 CNV loss 21841781
nsv820471 CNV deletion 20802225
nsv824308 CNV loss 20364138
nsv831135 CNV loss 17160897
nsv831136 CNV loss 17160897
nsv831138 CNV gain 17160897
nsv831139 CNV loss 17160897
nsv831140 CNV loss 17160897
nsv831141 CNV loss 17160897

Variation tolerance for PLXNA4 Gene

Residual Variation Intolerance Score: 3.84% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.46; 64.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PLXNA4 Gene

Human Gene Mutation Database (HGMD)
PLXNA4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PLXNA4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PLXNA4 Gene

Disorders for PLXNA4 Gene

Additional Disease Information for PLXNA4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for PLXNA4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PLXNA4 Gene

Publications for PLXNA4 Gene

  1. Genome-wide association study of lung function decline in adults with and without asthma. (PMID: 22424883) Imboden M … Probst-Hensch NM (The Journal of allergy and clinical immunology 2012) 3 44 58
  2. 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 44 58
  3. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 44 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for PLXNA4 Gene

Sources for PLXNA4 Gene

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