Pcnx1 Gene Detail

Summary

• Symbol
  Pcnx1
• Name
  pecanex 1
• Synonyms
  2900024E21Rik, 3526401J03Rik, Pcnx

• Feature Type
  protein coding gene
• IDs
  MGI:1891924
  NCBI Gene: 54604
• Alliance
  gene page
• Transcription Start Sites
  10 TSS

Location &
Maps

• Sequence Map
  Chr12:81906797-82047698 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 12, 37.98 cM
• Mapping Data
  2 experiments

Strain
Comparison

• SNPs within 2kb
  3786 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1891924	protein coding gene	Chr12:81906688-82047698 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0019908	protein coding gene	Chr12:82355683-82504228 (+)
A/J	MGP_AJ_G0019865	protein coding gene	Chr12:79334012-79474417 (+)
AKR/J	MGP_AKRJ_G0019841	protein coding gene	Chr12:81486495-81628708 (+)
BALB/cJ	MGP_BALBcJ_G0019845	protein coding gene	Chr12:79578505-79721927 (+)
C3H/HeJ	MGP_C3HHeJ_G0019651	protein coding gene	Chr12:81952118-82097328 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0020297	protein coding gene	Chr12:84744746-84892436 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017914	protein coding gene	Chr12:76309060-76453043 (+)
CAST/EiJ	MGP_CASTEiJ_G0019200	protein coding gene	Chr12:76838856-76996981 (+)
CBA/J	MGP_CBAJ_G0019622	protein coding gene	Chr12:88034097-88190161 (+)
DBA/2J	MGP_DBA2J_G0019737	protein coding gene	Chr12:78911881-79053771 (+)
FVB/NJ	MGP_FVBNJ_G0019723	protein coding gene	Chr12:77765770-77908701 (+)
LP/J	MGP_LPJ_G0019809	protein coding gene	Chr12:82271483-82440673 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019762	protein coding gene	Chr12:91013501-91175235 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020331	protein coding gene	Chr12:81030626-81173932 (+)
PWK/PhJ	MGP_PWKPhJ_G0018965	protein coding gene	Chr12:73326930-73470132 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0018759	protein coding gene	Chr12:75533216-75682946 (+)
WSB/EiJ	MGP_WSBEiJ_G0019252	protein coding gene	Chr12:81677242-81827685 (+)

Homology

• Human Ortholog
  PCNX1, pecanex 1

• Vertebrate Orthologs
  3

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PCNX1, pecanex 1
  
• Synonyms
  PCNX, PCNXL1, pecanex
• Links
  HGNC:19740

  NCBI Gene ID: 22990

  neXtProt AC: NX_Q96RV3

  UniProt: Q96RV3

  
  
• Chr Location
  14q24.2; chr14:70907405-71115382 (+)  GRCh38

---

• MGI Vertebrate Homology
  Pcnx1 stringent orthology
  1 human;1 mouse;1 rat;1 zebrafish
  
• HCOP
  vertebrate homology predictions: PCNX1
• Gene Tree
  Pcnx1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  2 phenotype references
  

• All Mutations and Alleles
  1
• Chemically induced (other)
  1
• Genomic Mutations
  1 involving Pcnx1
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  97 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  1
• GO References
  1

Expression

• Assay Results
  750
• Tissues
  6
• cDNA Data
  21
• Literature Summary
  3

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase pcnx1

Sequences &
Gene Models

• All Sequences
  88
• RefSeq
  22
• UniProt
  7
• CCDS
  CCDS26025.1

• Ensembl
  ENSMUSG00000021140 (Evidence)
• NCBI Gene
  54604

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000021140	Ensembl Gene Model | MGI Sequence Detail	140902	C57BL/6J
transcript	ENSMUST00000021567	Ensembl | MGI Sequence Detail	12139	Not Applicable
polypeptide	ENSMUSP00000021567	Ensembl | MGI Sequence Detail	2344	Not Applicable

Protein
Information

• UniProt
  7 Sequences
• Protein Ontology
  PR:000012424 pecanex-like protein 1
  (term hierarchy)
• InterPro Domains
  IPR007735 Pecanex, C-terminal
  IPR039797 Protein Pecanex
• GlyGen
  Q9QYC1 11 sites, 4 N-linked glycans (4 sites)

Molecular
Reagents

• All nucleic 23

  cDNA 23

  
  

  Microarray probesets 8

Other
Accession IDs

MGI:1921274, MGI:1923849, MGI:2144798, MGI:2144802, MGI:7538950

References

• Summaries
  All 29

  Developmental Gene Expression 3

  Gene Ontology 1

  Phenotypes 2
• 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: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 Pcnx1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr114204	Chr12:81906655-81906698 (+)	-120 bp
Tssr114205	Chr12:81906738-81906810 (+)	-23 bp
Tssr114206	Chr12:81906847-81906895 (+)	74 bp
Tssr114207	Chr12:81906964-81907010 (+)	190 bp
Tssr114208	Chr12:81974930-81974946 (+)	68,141 bp
Tssr114209	Chr12:82005895-82005907 (+)	99,104 bp
Tssr114210	Chr12:82005960-82005968 (+)	99,167 bp
Tssr114211	Chr12:82017942-82017973 (+)	111,161 bp
Tssr114212	Chr12:82017976-82017995 (+)	111,189 bp
Tssr114213	Chr12:82017996-82018019 (+)	111,211 bp