Pcdhb15 Gene Detail

Summary

• Symbol
  Pcdhb15
• Name
  protocadherin beta 15
• Synonyms
  Pcdhb7, PcdhbO

• Feature Type
  protein coding gene
• IDs
  MGI:2136750
  NCBI Gene: 93886
• Member of
  Pcdhb cluster
• Alliance
  gene page
• Transcription Start Sites
  2 TSS

Location &
Maps

• Sequence Map
  Chr18:37606599-37609393 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 18, 19.50 cM, cytoband B3
• Mapping Data
  2 experiments

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2136750	protein coding gene	Chr18:37606593-37609393 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0024323	protein coding gene	Chr18:35860305-35863105 (+)
A/J	MGP_AJ_G0024291	protein coding gene	Chr18:34649449-34652365 (+)
AKR/J	MGP_AKRJ_G0024259	protein coding gene	Chr18:35599022-35601822 (+)
BALB/cJ	MGP_BALBcJ_G0024290	protein coding gene	Chr18:34694299-34697099 (+)
C3H/HeJ	MGP_C3HHeJ_G0024056	protein coding gene	Chr18:35667567-35670367 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0024732	protein coding gene	Chr18:37168578-37171492 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022171	protein coding gene	Chr18:34694709-34697509 (+)
CAST/EiJ	MGP_CASTEiJ_G0023532	protein coding gene	Chr18:35628146-35630946 (+)
CBA/J	MGP_CBAJ_G0024026	protein coding gene	Chr18:38256056-38258856 (+)
DBA/2J	MGP_DBA2J_G0024156	protein coding gene	Chr18:34250960-34253760 (+)
FVB/NJ	MGP_FVBNJ_G0024122	protein coding gene	Chr18:33968134-33970934 (+)
LP/J	MGP_LPJ_G0024240	protein coding gene	Chr18:35955780-35958580 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024153	protein coding gene	Chr18:39537194-39540108 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024781	protein coding gene	Chr18:35461766-35464566 (+)
PWK/PhJ	MGP_PWKPhJ_G0023276	protein coding gene	Chr18:34476707-34479507 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0023081	protein coding gene	Chr18:35697635-35700439 (+)
WSB/EiJ	MGP_WSBEiJ_G0023594	protein coding gene	Chr18:35354144-35356944 (+)

Homology

• Human Ortholog
  PCDHB7, protocadherin beta 7

• Vertebrate Orthologs
  13

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PCDHB7, protocadherin beta 7
  
• Synonyms
  PCDH-BETA7
• Links
  HGNC:8692

  NCBI Gene ID: 56129

  neXtProt AC: NX_Q9Y5E2

  UniProt: Q9Y5E2

  
  
• Chr Location
  5q31.3; chr5:141172621-141176376 (+)  GRCh38.p7

---

• Alliance of Genome Resources
  Pcdhb15 stringent orthology
  1 human;1 mouse;1 rat;11 zebrafish
  
• HCOP
  vertebrate homology predictions: PCDHB7
• Gene Tree
  Pcdhb15
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotype references
  

• All Mutations and Alleles
  4
• Targeted
  4
• Genomic Mutations
  4 involving Pcdhb15
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  28 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  1
• GO References
  1

Expression

• Assay Results
  733
• Tissues
  18
• cDNA Data
  4
• Literature Summary
  5

Images

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Interactions

• Pcdhb15 interacts with 58 markers (Mir7-1, Mir7-2, Mir7b, ...) View All

Sequences &
Gene Models

• All Sequences
  30
• RefSeq
  2
• UniProt
  2
• CCDS
  CCDS29181.1

• Ensembl
  ENSMUSG00000047033 (Evidence)
• NCBI Gene
  93886

Representative Sequences			Length	Strain/Species
genomic	93886	NCBI Gene Model | MGI Sequence Detail	2795	C57BL/6J
transcript	NM_053140	RefSeq | MGI Sequence Detail	2795	C57BL/6
polypeptide	NP_444370	RefSeq | MGI Sequence Detail	786	C57BL/6

Protein
Information

• UniProt
  2 Sequences
• InterPro Domains
  IPR020894 Cadherin conserved site
  IPR032455 Cadherin, cytoplasmic C-terminal domain
  IPR002126 Cadherin-like
  IPR015919 Cadherin-like superfamily
  IPR013164 Cadherin, N-terminal

Molecular
Reagents

• All nucleic 6

  cDNA 4

  Primer pair 2

  
  

  Microarray probesets 2

References

• Summaries
  All 24

  Developmental Gene Expression 5

  Gene Ontology 1

  Phenotypes 4
• Earliest
  J:67989 Wu Q, et al., Comparative dna sequence analysis of mouse and human protocadherin gene clusters. Genome Res. 2001 Mar;11(3):389-404
• Latest
  J:332241 Kobayashi H, et al., Isoform requirement of clustered protocadherin for preventing neuronal apoptosis and neonatal lethality. iScience. 2023 Jan 20;26(1):105766

TSS for Pcdhb15:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr150706	Chr18:37606567-37606585 (+)	-23 bp
Tssr150707	Chr18:37606591-37606615 (+)	4 bp