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PLXND1 Gene

protein-coding   GIFtS: 65
GCID: GC03M129274

Plexin D1

  See PLXND1-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Plexin D11 2
PLEXD12
plexin-D12
KIAA06203

External Ids:    HGNC: 91071   Entrez Gene: 231292   Ensembl: ENSG000000043997   OMIM: 6042825   UniProtKB: Q9Y4D73   

Export aliases for PLXND1 gene to outside databases

Previous GC identifers: GC03U990121 GC03M129910 GC03M130555 GC03M130594 GC03M130756 GC03M126657


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for PLXND1 Gene:
PLXND1 (plexin D1) is a protein-coding gene. Diseases associated with PLXND1 include ischemic retinopathy, and mobius syndrome. GO annotations related to this gene include semaphorin receptor activity. An important paralog of this gene is PLXNA1.

UniProtKB/Swiss-Prot: PLXD1_HUMAN, Q9Y4D7
Function: Cell surface receptor for SEMA4A and for class 3 semaphorins, such as SEMA3A, SEMA3C and SEMA3E. Plays
an important role in cell-cell signaling, and in regulating the migration of a wide spectrum of cell types.
Regulates the migration of thymocytes in the medulla. Regulates endothelial cell migration. Plays an important
role in ensuring the specificity of synapse formation. Required for normal development of the heart and
vasculature (By similarity). Mediates anti-angiogenic signaling in response to SEMA3E

Gene Wiki entry for PLXND1 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000003.12  NC_018914.2  NT_005612.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the PLXND1 gene promoter:
         Pax-5   Egr-1   HTF   E47   PPAR-alpha   MZF-1   c-Rel   c-Myb   Hand1   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidPLXND1 promoter sequence
   Search Chromatin IP Primers for PLXND1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat PLXND1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q22.1   Ensembl cytogenetic band:  3q22.1   HGNC cytogenetic band: 3q21.3

PLXND1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PLXND1 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M129274:  view genomic region     (about GC identifiers)

Start:
129,274,018 bp from pter      End:
129,325,661 bp from pter
Size:
51,644 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: PLXD1_HUMAN, Q9Y4D7 (See protein sequence)
Recommended Name: Plexin-D1 precursor  
Size: 1925 amino acids; 212007 Da
Subunit: Interacts with NRP1, SEMA4A, SEMA3A, SEMA3C and SEMA3E (By similarity)
Sequence caution: Sequence=BAA31595.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
1 PDB 3D structure from and Proteopedia for PLXND1:
3H6N (3D)    
Secondary accessions: A7E2C6 C9JPZ6 Q6PJS9 Q8IZJ2 Q9BTQ2
Alternative splicing: 2 isoforms:  Q9Y4D7-1   Q9Y4D7-2   

Explore the universe of human proteins at neXtProt for PLXND1: NX_Q9Y4D7

Explore proteomics data for PLXND1 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn86, Asn155, Asn188, Asn224, Asn481, Asn500, Asn583, Asn696, Asn736, Asn802,
                                 Asn965, Asn1017, Asn1060, Asn1099, Asn1118, Asn1132, Asn1237, Asn1257
  • Modification sites at PhosphoSitePlus

  • See PLXND1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_055918.2  
    ENSEMBL proteins: 
     ENSP00000317128   ENSP00000426162   ENSP00000426540   ENSP00000427696   ENSP00000423832  
     ENSP00000426241   ENSP00000376931  
    Reactome Protein details: Q9Y4D7

    PLXND1 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for PLXND1 (Plexin D1)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    Browse OriGene Protein Over-expression Lysates
    OriGene Custom MassSpec
    OriGene Custom Protein Services for PLXND1
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    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for PLXND1

     
    Search eBioscience for Proteins for PLXND1 

    PLXND1 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of PLXND1
    R&D Systems Antibodies for PLXND1 (Plexin D1)
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    Novus Biologicals PLXND1 Antibodies
    Abcam antibodies for PLXND1
    Cloud-Clone Corp. Antibodies for PLXND1
    ThermoFisher Antibodies for PLXND1
    LSBio Antibodies in human, mouse, rat for PLXND1

    PLXND1 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for PLXND1
    Cloud-Clone Corp. CLIAs for PLXND1
    Search eBioscience for ELISAs for PLXND1 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    PLXN: Plexins

    Selected InterPro protein domains (see all 9):
     IPR014756 Ig_E-set
     IPR002165 Plexin_repeat
     IPR002909 IPT
     IPR008936 Rho_GTPase_activation_prot
     IPR013783 Ig-like_fold

    Graphical View of Domain Structure for InterPro Entry Q9Y4D7

    ProtoNet protein and cluster: Q9Y4D7

    1 Blocks protein domain: IPB013548 Plexin cytoplasmic region

    UniProtKB/Swiss-Prot: PLXD1_HUMAN, Q9Y4D7
    Similarity: Belongs to the plexin family
    Similarity: Contains 3 IPT/TIG domains
    Similarity: Contains 1 Sema domain


    Find genes that share domains with PLXND1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: PLXD1_HUMAN, Q9Y4D7
    Function: Cell surface receptor for SEMA4A and for class 3 semaphorins, such as SEMA3A, SEMA3C and SEMA3E. Plays
    an important role in cell-cell signaling, and in regulating the migration of a wide spectrum of cell types.
    Regulates the migration of thymocytes in the medulla. Regulates endothelial cell migration. Plays an important
    role in ensuring the specificity of synapse formation. Required for normal development of the heart and
    vasculature (By similarity). Mediates anti-angiogenic signaling in response to SEMA3E

         Genatlas biochemistry entry for PLXND1:
    plexin D1,calcium-dependent cell adhesion molecule at the neuronal cell surface,receptor for the semaphorin 7A
    (SEMA7A)

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004872receptor activity ----
    GO:0005515protein binding IPI17318185
    GO:0017154semaphorin receptor activity ISS--
         
    Find genes that share ontologies with PLXND1           About GenesLikeMe


    Phenotypes:
         15 MGI mutant phenotypes (inferred from 5 alleles(MGI details for Plxnd1):
     behavior/neurological  cardiovascular system  cellular  craniofacial  embryogenesis 
     growth/size/body  homeostasis/metabolism  limbs/digits/tail  mortality/aging  muscle 
     nervous system  normal  renal/urinary system  skeleton  vision/eye 

    Find genes that share phenotypes with PLXND1           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for PLXND1: Plxnd1tm1Joe Plxnd1tm1Ddg

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for PLXND1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for PLXND1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for PLXND1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for PLXND1

    miRNA
    Products:
        
    miRTarBase miRNAs that target PLXND1:
    hsa-mir-92b-3p (MIRT040538), hsa-mir-125b-5p (MIRT045997), hsa-mir-155-5p (MIRT001523), hsa-mir-335-5p (MIRT017498)

    Block miRNA regulation of human, mouse, rat PLXND1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate PLXND1 (see all 38):
    hsa-miR-142-5p hsa-let-7d hsa-miR-513a-5p hsa-miR-128 hsa-miR-766 hsa-let-7g hsa-let-7a hsa-miR-186
    SwitchGear 3'UTR luciferase reporter plasmidPLXND1 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for PLXND1
    Predesigned siRNA for gene silencing in human, mouse, rat PLXND1

    Gene Editing
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    Clone
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    OriGene ORF clones in mouse, rat for PLXND1
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    GenScript: all cDNA clones in your preferred vector: PLXND1 (NM_015103)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PLXND1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PLXND1
    Addgene plasmids for PLXND1 

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PLXND1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    PLXD1_HUMAN, Q9Y4D7: Cell membrane; Single-pass membrane protein (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5
    lysosome1
    mitochondrion1
    nucleus1
    peroxisome1

    Gene Ontology (GO): 5 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular IEA--
    GO:0005886plasma membrane TAS--
    GO:0005887integral component of plasma membrane ISS--
    GO:0016020membrane ----
    GO:0016021integral component of membrane ----

    Find genes that share ontologies with PLXND1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for PLXND1 About    
    See pathways by source

    SuperPathContained pathways About
    1L1CAM interactions
    Axon guidance0.63
    Developmental Biology0.63
    2Semaphorin interactions
    Semaphorin interactions0.43
    Other semaphorin interactions0.00


    Find genes that share SuperPaths with PLXND1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for PLXND1
        Other semaphorin interactions


        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for PLXND1
    Interactions:

        Search GeneGlobe Interaction Network for PLXND1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 10)

    Selected Interacting proteins for PLXND1 (Q9Y4D71, 2, 3 ENSP000003171284) via UniProtKB, MINT, STRING, and/or I2D (see all 12)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SEMA3EO150411, 2, 3, ENSP000003032124EBI-310731,EBI-7283693 MINT-4507932 MINT-4507966 I2D: score=1 STRING: ENSP00000303212
    SEMA4AQ9H3S11, 2, 3, ENSP000003471174EBI-310731,EBI-3924922 MINT-4507879 MINT-4507918 I2D: score=2 STRING: ENSP00000347117
    NR4A1P227361EBI-310731,EBI-721550
    NRP1ENSP000002653714STRING: ENSP00000265371
    PIP5K1BENSP000002653824STRING: ENSP00000265382
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001525angiogenesis ISS--
    GO:0001569patterning of blood vessels IEA--
    GO:0007165signal transduction ----
    GO:0007275multicellular organismal development ----
    GO:0007411axon guidance TAS--

    Find genes that share ontologies with PLXND1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for PLXND1 (PLXD1)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for PLXND1 gene: 
    NM_015103.2  

    Unigene Cluster for PLXND1:

    Plexin D1
    Hs.301685  [show with all ESTs]
    Unigene Representative Sequence: AY116661
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000324093(uc003emx.2) ENST00000501038 ENST00000504689 ENST00000504524(uc003emw.2)
    ENST00000512744 ENST00000506979 ENST00000508630 ENST00000512807 ENST00000504979
    ENST00000503166 ENST00000514990 ENST00000504767 ENST00000511018 ENST00000515191
    ENST00000505505 ENST00000505665 ENST00000505237 ENST00000393239(uc011blb.1)

    miRNA
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    Block miRNA regulation of human, mouse, rat PLXND1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate PLXND1 (see all 38):
    hsa-miR-142-5p hsa-let-7d hsa-miR-513a-5p hsa-miR-128 hsa-miR-766 hsa-let-7g hsa-let-7a hsa-miR-186
    SwitchGear 3'UTR luciferase reporter plasmidPLXND1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat PLXND1
    Clone
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    OriGene ORF clones in mouse, rat for PLXND1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: PLXND1 (NM_015103)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PLXND1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PLXND1
    Addgene plasmids for PLXND1 
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat PLXND1
      QuantiTect SYBR Green Assays in human, mouse, rat PLXND1
      QuantiFast Probe-based Assays in human, mouse, rat PLXND1

    Additional mRNA sequence: 

    AB014520.2 AK026388.1 AK299425.1 AL832710.1 AY116661.1 BC003526.1 BC011848.2 BC030110.1 
    BC044228.1 BC062465.1 BC150280.1 

    15 DOTS entries:

    DT.314549  DT.100700289  DT.100825491  DT.92442433  DT.40213494  DT.95262148  DT.92442435  DT.92442429 
    DT.99994084  DT.91805780  DT.97843196  DT.100766398  DT.95136034  DT.97818240  DT.100729002 

    Selected AceView cDNA sequences (see all 280):

    BU538457 AW341385 BI493374 AA774942 CR620577 BQ027169 BU625206 AW471163 
    BU857007 AI870925 AI804070 BM549021 BE313727 AI206874 BP432127 BE275493 
    BC044228 BI822442 AL043741 AI139124 AI701007 CA435955 T08830 BM998608 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for PLXND1 (see all 21)    About this scheme

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

    ExUns: 14c ^ 15a · 15b ^ 16 ^ 17 ^ 18a · 18b · 18c ^ 19a · 19b ^ 20 ^ 21 ^ 22a · 22b ^ 23a · 23b · 23c · 23d ^ 24 ^ 25a · 25b ^ 26 ^ 27 ^ 28 ^ 29a · 29b ^
    SP1:                                                                                      -                                                           -         
    SP2:                                                                                                                                                  -         
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 30 ^ 31a · 31b ^ 32a · 32b ^ 33 ^ 34a · 34b ^ 35a · 35b · 35c
    SP1:              -     -                 -                           
    SP2:                    -                 -                           
    SP3:                                                                  
    SP4:                                                                  
    SP5:                                                                  


    ECgene alternative splicing isoforms for PLXND1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    PLXND1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGGGCTGGAG
    PLXND1 Expression
    About this image


    PLXND1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 13) fully expand
     
     Brain (Nervous System)    fully expand to see all 8 entries
             Pons
     
     Skeletal Muscle (Muscoskeletal System)    fully expand to see all 6 entries
             Mononuclear Myocytes Hyoid Arch Muscles
     
     Pancreas (Endocrine System)
             Islets of Langerhans
     
     Peripheral Nervous System (Nervous System)
             Schwann Precursor Cells Peripheral Nerve Domain
     
     Neural Tube (Nervous System)
             Metencephalon
    PLXND1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    PLXND1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.301685

    UniProtKB/Swiss-Prot: PLXD1_HUMAN, Q9Y4D7
    Tissue specificity: Detected at low levels in heart, placenta, lung, skeletal muscle, kidney, thymus and liver.
    Detected at very low levels in brain, colon, spleen, small intestine and peripheral blood leukocytes

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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for PLXND1 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Plxnd11 , 5 plexin D11, 5 87.19(n)1
    92.16(a)1
      6 (53.72 cM)5
    677841  NM_026376.31  NP_080652.21 
     1159548115 
    chicken
    (Gallus gallus)
    Aves PLXND11 plexin D1 74.86(n)
    75.81(a)
      416124  XM_414455.4  XP_414455.3 
    lizard
    (Anolis carolinensis)
    Reptilia PLXND16
    plexin D1
    75(a)
    1 ↔ 1
    GL343273.1(450246-595524)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia plxnd11 plexin D1 65.47(n)
    65.27(a)
      779491  XM_002936256.2  XP_002936302.2 
    zebrafish
    (Danio rerio)
    Actinopterygii plxnd11 plexin D1 66.23(n)
    60.81(a)
      402998  NM_205697.2  NP_991260.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta plexB6
    plexin B
    28(a)
    1 → many
    4(53104-64404)
    worm
    (Caenorhabditis elegans)
    Secernentea plx-26
    Protein PLX-2 (plx-2) mRNA, complete cds
    27(a)
    1 → many
    II(14417888-14424891) WBGene00004048


    ENSEMBL Gene Tree for PLXND1 (if available)
    TreeFam Gene Tree for PLXND1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for PLXND1 gene
    PLXNA12  PLXNA22  PLXNB12  PLXNB22  PLXNA32  PLXNC12  PLXNB32  PLXNA42  
    11 SIMAP similar genes for PLXND1 using alignment to 7 protein entries:     PLXD1_HUMAN (see all proteins):
    DKFZp761P19121    PLXNC1    PLXNB2    PLXNB1    PLXNB3    Nbla00445
    MM1    PLXNA3    PLXNA4    PLXNA2    PLXNA1

    Find genes that share paralogs with PLXND1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for PLXND1 (see all 1337)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1826532661,2
    Cuntested1256156201(+) ACCACA/G/TGAGAG 1 -- int10--------
    rs1492027091,2
    --126656808(+) CCTGGC/TCCTTA 1 -- ds50010--------
    rs27136151,2
    C,F,A,H--126656913(-) AGCCCG/ATCAGG 1 -- ds500114Minor allele frequency- A:0.12NS EA NA WA 1768
    rs1433221541,2
    --126656920(+) GGCTTA/GTTAGA 1 -- ds50010--------
    rs1511710071,2
    C--126657036(+) TGGGCC/TGGGCC 1 -- ds50010--------
    rs622675691,2
    F--126657037(+) GGGCCG/AGGCCC 1 -- ds50012Minor allele frequency- A:0.05NA 122
    rs1401670351,2
    --126657059(+) GCAGCC/GTGCAC 1 -- ds50010--------
    rs1847063641,2
    --126657110(+) AGCTAA/GTCAGG 1 -- ds50010--------
    rs1904459961,2
    C--126657154(+) AGGAGA/GGACGG 1 -- ds50010--------
    rs1452625811,2
    --126657157(+) AGGGAC/TGGCAG 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for PLXND1 (129274018 - 129325661 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for PLXND1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv508953CNV Insertion20534489
    dgv5254n71CNV Loss21882294
    dgv5255n71CNV Loss21882294
    nsv520828CNV Loss19592680
    nsv522149CNV Loss19592680
    esv27314CNV Loss19812545
    nsv519392CNV Gain19592680
    nsv877482CNV Gain21882294

    Human Gene Mutation Database (HGMD): PLXND1
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing PLXND1
    DNA2.0 Custom Variant and Variant Library Synthesis for PLXND1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 604282    OMIM disorders: --

    3 diseases for PLXND1:    
    About MalaCards
    ischemic retinopathy    mobius syndrome    double outlet right ventricle

    1 disease from the University of Copenhagen DISEASES database for PLXND1:
    Endometrioid ovary carcinoma

    Find genes that share disorders with PLXND1           About GenesLikeMe

    1 Novoseek inferred disease relationship for PLXND1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    mobius syndrome 81.8 1 15301830 (1)

    Human Genome Epidemiology (HuGE) Navigator: PLXND1 (1 document)

    Export disorders for PLXND1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for PLXND1 gene, integrated from 10 sources (see all 30):
    (articles sorted by number of sources associating them with PLXND1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. PLEXIN-D1, a novel plexin family member, is expressed in vascular endothelium and the central nervous system during mouse embryogenesis. (PubMed id 12412018)1, 2, 3, 9 van der Zwaag B.... Van Bokhoven H. (Dev. Dyn. 2002)
    2. Semaphorin 3E initiates antiangiogenic signaling through plexin D1 by regulating Arf6 and R-Ras. (PubMed id 20385769)1, 2, 9 Sakurai A.... Gutkind J.S. (Mol. Cell. Biol. 2010)
    3. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)1, 2 Liu T.... Smith R.D. (J. Proteome Res. 2005)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    5. Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9734811)1, 2 Ishikawa K.... Ohara O. (DNA Res. 1998)
    6. Plexin D1 is ubiquitously expressed on tumor vessels and tumor cells in solid malignancies. (PubMed id 19703316)1, 9 Roodink I....Leenders W.P. (BMC Cancer 2009)
    7. Semaphorin 3E expression correlates inversely with Plexin D1 during tumor progression. (PubMed id 18974298)1, 9 Roodink I....Leenders W. (Am. J. Pathol. 2008)
    8. Sequence analysis of the PLEXIN-D1 gene in MAPbius syndrome patients. (PubMed id 15301830)1, 9 van der Zwaag B....Padberg G.W. (Pediatr. Neurol. 2004)
    9. Semaphorin 3E suppresses tumor cell death triggered by the plexin D1 dependence receptor in metastatic breast cancers. (PubMed id 24139859)1 Luchino J....Mann F. (Cancer Cell 2013)
    10. Plexin D1: new potential biomarker for cervical cancer. (PubMed id 22738647)1 Shalaby M.A....Hampson I. (amp 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 23129 HGNC: 9107 AceView: PLXND1 Ensembl:ENSG00000004399 euGenes: HUgn23129
    ECgene: PLXND1 H-InvDB: PLXND1

    (According to HUGE)
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    HUGE: KIAA0620

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for PLXND1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for PLXND1 gene:
    Search GeneIP for patents involving PLXND1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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