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Plxnd1 Gene Detail
Summary
  • Symbol
    Plxnd1
  • Name
    plexin D1
  • Synonyms
    6230425C21Rik, b2b1863Clo, b2b553Clo
  • Feature Type
    protein coding gene
  • IDs
    MGI:2154244
    NCBI Gene: 67784
  • Alliance
    gene page
  • Transcription Start Sites
    7 TSS
Location &
Maps
more
  • Sequence Map
    Chr6:115931772-115971966 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 6, 53.72 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    2040 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2154244
 protein coding gene Chr6:115931772-115972300 (-)
129S1/SvImJ MGP_129S1SvImJ_G0031161
 protein coding gene Chr6:118601816-118643136 (-)
A/J MGP_AJ_G0031131
 protein coding gene Chr6:114051285-114092194 (-)
AKR/J MGP_AKRJ_G0031061
 protein coding gene Chr6:117103390-117143625 (-)
BALB/cJ MGP_BALBcJ_G0031141
 protein coding gene Chr6:113856454-113900161 (-)
C3H/HeJ MGP_C3HHeJ_G0030567
 protein coding gene Chr6:67153683-67193878 (+)
C57BL/6NJ MGP_C57BL6NJ_G0031600
 protein coding gene Chr6:121622838-121663217 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0028764
 protein coding gene Chr6:111049398-111089612 (-)
CAST/EiJ MGP_CASTEiJ_G0030248
 protein coding gene Chr6:117479092-117519191 (-)
CBA/J MGP_CBAJ_G0030827
 protein coding gene Chr6:126392894-126440962 (-)
DBA/2J MGP_DBA2J_G0030981
 protein coding gene Chr6:112967503-113008466 (-)
FVB/NJ MGP_FVBNJ_G0030934
 protein coding gene Chr6:112147187-112191919 (-)
LP/J MGP_LPJ_G0031060
 protein coding gene Chr6:118605945-118647847 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0030969
 protein coding gene Chr6:130556227-130598084 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0031628
 protein coding gene Chr6:117129061-117169898 (-)
PWK/PhJ MGP_PWKPhJ_G0029964
 protein coding gene Chr6:111984754-112026069 (-)
SPRET/EiJ MGP_SPRETEiJ_G0029792
 protein coding gene Chr6:115851178-115895511 (-)
WSB/EiJ MGP_WSBEiJ_G0030332
 protein coding gene Chr6:117393992-117437648 (-)



Homology
more
  • Human Ortholog
    PLXND1, plexin D1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PLXND1, plexin D1
  • Synonyms
    CHTD9, PLEXD1
  • Links
    NCBI Gene ID: 23129
    UniProt: Q9Y4D7

  • Chr Location
    3q22.1; chr3:129555214-129606676 (-)  GRCh38
Human Diseases
more
  • Diseases
    1 with Plxnd1 mouse models

Human Disease Mouse Models
      
IDs
 View 2 models
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    2 with disease annotations
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    75 phenotypes from 8 alleles in 15 genetic backgrounds
    43 images
    66 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Nullizygous mice display neonatal lethality, thin-walled atria, and vascular abnormalities including abnormal branchial arch artery development, cardiac outflow tract anomalies, and reduced vascular smooth muscle around some vessels. Homozygotes for a knock-out allele show prenatal lethality, small fetal size, subcutaneous hemorrhage, atelectasis, impaired cardiac and pulmonary vascular development, and enhanced vascular endothelial cell migration and vessel formation.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    58
  • GO References
    17
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    813
  • Tissues
    64
  • cDNA Data
    99
  • Literature Summary
    66
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000030123 Ensembl Gene Model | MGI Sequence Detail 40195 C57BL/6J ±  kb
    transcript ENSMUST00000015511 Ensembl | MGI Sequence Detail 6907 Not Applicable  
    polypeptide ENSMUSP00000015511 Ensembl | MGI Sequence Detail 1925 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 105
      cDNA 100
      Primer pair 1
      Other 4

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGI:1915034, MGI:5316760, MGI:5476162
    References
    more
    • Summaries
      All 148
      Developmental Gene Expression 66
      Diseases 1
      Gene Ontology 17
      Phenotypes 66
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:366589 Shao LX, et al., Psilocybin's lasting action requires pyramidal cell types and 5-HT(2A) receptors. Nature. 2025 Apr 2;
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    03/25/2025
    MGI 6.24     		The Jackson Laboratory