Prkch Gene Detail

Summary

• Symbol
  Prkch
• Name
  protein kinase C, eta
• Synonyms
  Pkch

• Feature Type
  protein coding gene
• IDs
  MGI:97600
  NCBI Gene: 18755
• Alliance
  gene page
• Transcription Start Sites
  32 TSS

Location &
Maps

• Sequence Map
  Chr12:73631570-73824959 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 12, 30.81 cM, cytoband C3-D1
• Mapping Data
  3 experiments

Strain
Comparison

• SNPs within 2kb
  5969 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_97600	protein coding gene	Chr12:73631570-73824959 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0019839	protein coding gene	Chr12:73504922-73709907 (+)
A/J	MGP_AJ_G0019797	protein coding gene	Chr12:70747118-70944729 (+)
AKR/J	MGP_AKRJ_G0019772	protein coding gene	Chr12:72888378-73082315 (+)
BALB/cJ	MGP_BALBcJ_G0019777	protein coding gene	Chr12:71229296-71428678 (+)
C3H/HeJ	MGP_C3HHeJ_G0019582	protein coding gene	Chr12:73337293-73541177 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0020229	protein coding gene	Chr12:75791527-75995318 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017847	protein coding gene	Chr12:68183831-68379613 (+)
CAST/EiJ	MGP_CASTEiJ_G0019134	protein coding gene	Chr12:68133822-68345987 (+)
CBA/J	MGP_CBAJ_G0019552	protein coding gene	Chr12:78695655-78920687 (+)
DBA/2J	MGP_DBA2J_G0019668	protein coding gene	Chr12:70640901-70835532 (+)
FVB/NJ	MGP_FVBNJ_G0019655	protein coding gene	Chr12:69486451-69681402 (+)
LP/J	MGP_LPJ_G0019740	protein coding gene	Chr12:73508418-73714863 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019694	protein coding gene	Chr12:81795880-82006451 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020264	protein coding gene	Chr12:72381795-72581724 (+)
PWK/PhJ	MGP_PWKPhJ_G0018899	protein coding gene	Chr12:64964015-65161281 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0018694	protein coding gene	Chr12:66815031-67022453 (+)
WSB/EiJ	MGP_WSBEiJ_G0019185	protein coding gene	Chr12:72975477-73177464 (+)

Homology

• Human Ortholog
  PRKCH, protein kinase C eta

• Vertebrate Orthologs
  4

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PRKCH, protein kinase C eta
  
• Synonyms
  nPKC-eta, PKC-L, PKCL, PRKCL, uORF2
• Links
  HGNC:9403

  NCBI Gene ID: 5583

  neXtProt AC: NX_P24723

  UniProt: C0HM02, P24723

  
  
• Chr Location
  14q23.1; chr14:61187468-61550976 (+)  GRCh38

---

• MGI Vertebrate Homology
  Prkch stringent orthology
  1 human;1 mouse;1 rat;2 zebrafish
  
• HCOP
  vertebrate homology predictions: PRKCH
• Protein SuperFamily
  PKC_delta
• Gene Tree
  Prkch
  

Human Diseases

• Diseases
  1 with human PRKCH associations

				Human Disease	Mouse Models
				cerebral infarction IDs cerebral infarction       DOID:3526 ICD10CM:I63 MESH:D002544 NCI:C50486 OMIM:601367 UMLS_CUI:C0007785

Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  33 phenotypes from 3 alleles in 4 genetic backgrounds
  9 phenotypes from multigenic genotypes
  19 phenotype references
  

• All Mutations and Alleles
  11
• Chemically induced (other)
  1
• Endonuclease-mediated
  3
• Gene trapped
  1
• Targeted
  6
• Genomic Mutations
  1 involving Prkch
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  41 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit thymus hypoplasia, enlarged lymph nodes and alterations in T cell homeostasis and activation. Mice homozygous for a different knock-out allele show impaired wound healing and increased incidence of tumors by chemical induction.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  41
• GO References
  11

Expression

• Assay Results
  834
• Tissues
  61
• cDNA Data
  54
• Literature Summary
  10

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  GEISHA PRKCH
  Xenbase prkch

Sequences &
Gene Models

• All Sequences
  42
• RefSeq
  4
• UniProt
  4
• CCDS
  CCDS25976.1

• Ensembl
  ENSMUSG00000021108 (Evidence)
• NCBI Gene
  18755

Representative Sequences			Length	Strain/Species
genomic	18755	NCBI Gene Model | MGI Sequence Detail	193390	C57BL/6J
transcript	NM_001313977	RefSeq | MGI Sequence Detail	3643	C57BL/6
polypeptide	P23298	UniProt | EBI | MGI Sequence Detail	683	Not Applicable

Protein
Information

• UniProt
  4 Sequences
• Protein Ontology
  PR:000002343 protein kinase C eta type
  (term hierarchy)
• EC
  2.7.11.13
• InterPro Domains
  IPR000961 AGC-kinase, C-terminal
  IPR046349 C1-like domain superfamily
  IPR000008 C2 domain
  IPR035892 C2 domain superfamily
  IPR020454 Diacylglycerol/phorbol-ester binding
  IPR034665 Novel protein kinase C eta, catalytic domain
  IPR017441 Protein kinase, ATP binding site
  IPR014376 Protein kinase C, delta/epsilon/eta/theta types
  IPR027431 Protein kinase C, eta
  IPR002219 Protein kinase C-like, phorbol ester/diacylglycerol-binding domain
  IPR017892 Protein kinase, C-terminal
  IPR000719 Protein kinase domain
  IPR011009 Protein kinase-like domain superfamily
  IPR008271 Serine/threonine-protein kinase, active site

Molecular
Reagents

• All nucleic 58

  Genomic 2

  cDNA 55

  Primer pair 1

  
  

  Microarray probesets 4

Other
Accession IDs

MGD-MRK-13332

References

• Summaries
  All 67

  Developmental Gene Expression 10

  Gene Ontology 11

  Phenotypes 19
• Earliest
  J:14175 Osada S, et al., A phorbol ester receptor/protein kinase, nPKC eta, a new member of the protein kinase C family predominantly expressed in lung and skin. J Biol Chem. 1990 Dec 25;265(36):22434-40
• Latest
  J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Prkch:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr113798	Chr12:73631008-73631019 (+)	-556 bp
Tssr113799	Chr12:73631096-73631101 (+)	-471 bp
Tssr113800	Chr12:73631414-73631433 (+)	-146 bp
Tssr113801	Chr12:73631436-73631461 (+)	-121 bp
Tssr113802	Chr12:73631562-73631584 (+)	3 bp
Tssr113803	Chr12:73631590-73631597 (+)	24 bp
Tssr113804	Chr12:73631611-73631625 (+)	48 bp
Tssr113805	Chr12:73631813-73631832 (+)	253 bp
Tssr113806	Chr12:73632930-73632965 (+)	1,378 bp
Tssr113807	Chr12:73638636-73638642 (+)	7,069 bp
Tssr113808	Chr12:73640400-73640411 (+)	8,836 bp
Tssr113809	Chr12:73641296-73641316 (+)	9,736 bp
Tssr113810	Chr12:73642275-73642302 (+)	10,719 bp
Tssr113811	Chr12:73645233-73645242 (+)	13,668 bp
Tssr113812	Chr12:73645250-73645262 (+)	13,686 bp
Tssr113813	Chr12:73645268-73645278 (+)	13,703 bp
Tssr113814	Chr12:73650660-73650687 (+)	19,104 bp
Tssr113815	Chr12:73651906-73651940 (+)	20,353 bp
Tssr113816	Chr12:73663009-73663014 (+)	31,442 bp
Tssr113817	Chr12:73665417-73665419 (+)	33,848 bp
Tssr113818	Chr12:73683467-73683469 (+)	51,898 bp
Tssr113819	Chr12:73696047-73696067 (+)	64,487 bp
Tssr113820	Chr12:73760685-73760690 (+)	129,118 bp
Tssr113821	Chr12:73762947-73762958 (+)	131,383 bp
Tssr113822	Chr12:73767370-73767375 (+)	135,803 bp
Tssr113823	Chr12:73772436-73772440 (+)	140,868 bp
Tssr113824	Chr12:73778555-73778559 (+)	146,987 bp
Tssr113825	Chr12:73781576-73781581 (+)	150,009 bp
Tssr113826	Chr12:73788715-73788753 (+)	157,164 bp
Tssr113827	Chr12:73802785-73802816 (+)	171,231 bp
Tssr113828	Chr12:73812465-73812466 (+)	180,896 bp
Tssr113829	Chr12:73824185-73824192 (+)	192,619 bp