Plxdc2 Gene Detail

Summary

• Symbol
  Plxdc2
• Name
  plexin domain containing 2
• Synonyms
  1200007L24Rik, 5430431D22Rik, Tem7r

• Feature Type
  protein coding gene
• IDs
  MGI:1914698
  NCBI Gene: 67448
• Alliance
  gene page
• Transcription Start Sites
  51 TSS

Location &
Maps

• Sequence Map
  Chr2:16361115-16760650 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 2, 11.80 cM
• Mapping Data
  2 experiments

Strain
Comparison

• SNPs within 2kb
  11499 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1914698	protein coding gene	Chr2:16360551-16765941 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025368	protein coding gene	Chr2:13958526-14378997 (+)
A/J	MGP_AJ_G0025346	protein coding gene	Chr2:13421610-13817869 (+)
AKR/J	MGP_AKRJ_G0025314	protein coding gene	Chr2:13812134-14234303 (+)
BALB/cJ	MGP_BALBcJ_G0025341	protein coding gene	Chr2:13418799-13815721 (+)
C3H/HeJ	MGP_C3HHeJ_G0025101	protein coding gene	Chr2:13762732-14169824 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0025783	protein coding gene	Chr2:14290723-14707044 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023199	protein coding gene	Chr2:12915940-13290930 (+)
CAST/EiJ	MGP_CASTEiJ_G0024564	protein coding gene	Chr2:13741632-14158599 (+)
CBA/J	MGP_CBAJ_G0025080	protein coding gene	Chr2:14945812-15388284 (+)
DBA/2J	MGP_DBA2J_G0025212	protein coding gene	Chr2:13329875-13728968 (+)
FVB/NJ	MGP_FVBNJ_G0025174	protein coding gene	Chr2:13159627-13554299 (+)
LP/J	MGP_LPJ_G0025298	protein coding gene	Chr2:13829079-14238515 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025206	protein coding gene	Chr2:14895858-15371049 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025842	protein coding gene	Chr2:13748673-14173285 (+)
PWK/PhJ	MGP_PWKPhJ_G0024315	protein coding gene	Chr2:13182685-13590446 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024115	protein coding gene	Chr2:13859518-14277381 (+)
WSB/EiJ	MGP_WSBEiJ_G0024634	protein coding gene	Chr2:13900339-14304057 (+)

Homology

• Human Ortholog
  PLXDC2, plexin domain containing 2

• Vertebrate Orthologs
  4

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PLXDC2, plexin domain containing 2
  
• Synonyms
  PLXDC2-OT, TEM7R
• Links
  HGNC:21013

  NCBI Gene ID: 84898

  neXtProt AC: NX_Q6UX71

  UniProt: Q6UX71

  
  
• Chr Location
  10p12.31; chr10:19816239-20289856 (+)  GRCh38

---

• MGI Vertebrate Homology
  Plxdc2 stringent orthology
  1 human;1 mouse;1 rat;2 zebrafish
  
• HCOP
  vertebrate homology predictions: PLXDC2
• Gene Tree
  Plxdc2
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  1 phenotype from 1 allele in 1 genetic background
  11 phenotype references
  

• All Mutations and Alleles
  8
• Endonuclease-mediated
  3
• Gene trapped
  1
• Targeted
  4
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  29 strains or lines available

Mice homozygous for a hypomorphic reporter allele are viable and behaviorally normal with no apparent abnormalities in the developing and mature nervous system.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  2
• GO References
  2

Expression

• Assay Results
  1124
• Tissues
  82
• cDNA Data
  12
• Literature Summary
  10

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase plxdc2

Sequences &
Gene Models

• All Sequences
  48
• RefSeq
  4
• UniProt
  3
• CCDS
  CCDS15705.1

• Ensembl
  ENSMUSG00000026748 (Evidence)
• NCBI Gene
  67448

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000026748	Ensembl Gene Model | MGI Sequence Detail	399536	C57BL/6J
transcript	ENSMUST00000028081	Ensembl | MGI Sequence Detail	6947	Not Applicable
polypeptide	ENSMUSP00000028081	Ensembl | MGI Sequence Detail	530	Not Applicable

Protein
Information

• UniProt
  3 Sequences
• Protein Ontology
  PR:000012891 plexin domain-containing protein 2
  (term hierarchy)
• InterPro Domains
  IPR031152 Plexin domain-containing protein
  IPR002165 Plexin repeat
  IPR016201 PSI domain
• GlyGen
  Q9DC11 2 sites

Molecular
Reagents

• All nucleic 14

  cDNA 12

  Primer pair 2

  
  

  Microarray probesets 8

Other
Accession IDs

MGI:1921756, MGI:2139026, MGI:2139203, MGI:2139259

References

• Summaries
  All 40

  Developmental Gene Expression 10

  Gene Ontology 2

  Phenotypes 11
• Earliest
  J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
• Latest
  J:313619 Bedogni F, et al., Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Front Mol Neurosci. 2021;14:686034

TSS for Plxdc2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr16298	Chr2:16360448-16360467 (+)	-657 bp
Tssr16299	Chr2:16360821-16360832 (+)	-288 bp
Tssr16300	Chr2:16360846-16360864 (+)	-260 bp
Tssr16301	Chr2:16360891-16360894 (+)	-222 bp
Tssr16302	Chr2:16360898-16360910 (+)	-211 bp
Tssr16303	Chr2:16361085-16361102 (+)	-21 bp
Tssr16304	Chr2:16361105-16361127 (+)	1 bp
Tssr16305	Chr2:16361134-16361168 (+)	36 bp
Tssr16306	Chr2:16361176-16361198 (+)	72 bp
Tssr16307	Chr2:16361261-16361297 (+)	164 bp
Tssr16308	Chr2:16361392-16361426 (+)	294 bp
Tssr16309	Chr2:16361436-16361481 (+)	344 bp
Tssr16310	Chr2:16361487-16361515 (+)	386 bp
Tssr16311	Chr2:16361530-16361553 (+)	427 bp
Tssr16312	Chr2:16361555-16361606 (+)	466 bp
Tssr16313	Chr2:16365801-16365851 (+)	4,711 bp
Tssr16314	Chr2:16366224-16366231 (+)	5,113 bp
Tssr16315	Chr2:16367247-16367251 (+)	6,134 bp
Tssr16316	Chr2:16368325-16368346 (+)	7,221 bp
Tssr16317	Chr2:16389435-16389447 (+)	28,326 bp
Tssr16318	Chr2:16389475-16389496 (+)	28,371 bp
Tssr16319	Chr2:16401388-16401408 (+)	40,283 bp
Tssr16320	Chr2:16406463-16406474 (+)	45,354 bp
Tssr16321	Chr2:16406489-16406517 (+)	45,388 bp
Tssr16322	Chr2:16406536-16406590 (+)	45,448 bp
Tssr16323	Chr2:16406837-16406851 (+)	45,729 bp
Tssr16324	Chr2:16408969-16408973 (+)	47,856 bp
Tssr16325	Chr2:16413339-16413351 (+)	52,230 bp
Tssr16326	Chr2:16413358-16413375 (+)	52,252 bp
Tssr16327	Chr2:16413502-16413526 (+)	52,399 bp
Tssr16328	Chr2:16415361-16415377 (+)	54,254 bp
Tssr16329	Chr2:16429328-16429333 (+)	68,216 bp
Tssr16330	Chr2:16436546-16436563 (+)	75,440 bp
Tssr16331	Chr2:16443104-16443130 (+)	82,002 bp
Tssr16334	Chr2:16468655-16468667 (+)	107,546 bp
Tssr16335	Chr2:16516963-16516975 (+)	155,854 bp
Tssr16336	Chr2:16536863-16536890 (+)	175,762 bp
Tssr16337	Chr2:16553548-16553566 (+)	192,442 bp
Tssr16338	Chr2:16553739-16553764 (+)	192,637 bp
Tssr16339	Chr2:16570213-16570220 (+)	209,102 bp
Tssr16340	Chr2:16573331-16573361 (+)	212,231 bp
Tssr16341	Chr2:16654989-16655001 (+)	293,880 bp
Tssr16342	Chr2:16662226-16662231 (+)	301,114 bp
Tssr16343	Chr2:16665631-16665648 (+)	304,525 bp
Tssr16344	Chr2:16680042-16680077 (+)	318,945 bp
Tssr16345	Chr2:16680113-16680117 (+)	319,000 bp
Tssr16346	Chr2:16734094-16734106 (+)	372,985 bp
Tssr16347	Chr2:16756008-16756019 (+)	394,899 bp
Tssr16348	Chr2:16756089-16756107 (+)	394,983 bp
Tssr16349	Chr2:16756196-16756215 (+)	395,091 bp
Tssr16350	Chr2:16760128-16760140 (+)	399,019 bp