Pnck (pregnancy up-regulated nonubiquitous CaM kinase) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pnck (pregnancy up-regulated nonubiquitous CaM kinase) Rattus norvegicus
Analyze
Symbol: Pnck
Name: pregnancy up-regulated nonubiquitous CaM kinase
RGD ID: 69249
Description: Enables calmodulin-dependent protein kinase activity. Predicted to be involved in peptidyl-serine phosphorylation. Predicted to be located in cytoplasm and nucleus. Orthologous to human PNCK (pregnancy up-regulated nonubiquitous CaM kinase); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; ethanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: calcium/calmodulin-dependent protein kinase 1 beta; calcium/calmodulin-dependent protein kinase 1, beta; calcium/calmodulin-dependent protein kinase type 1B; caM kinase I beta; caM kinase IB; caM-KI beta; Camk1b; caMKI-beta; LOC100360379; pregnancy up-regulated non-ubiquitously-expressed CaM kinase homolog; pregnancy upregulated non-ubiquitously expressed CaM kinase; Protein Kinase-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X151,369,406 - 151,373,508 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX151,369,410 - 151,373,446 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX153,510,581 - 153,514,481 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X157,073,812 - 157,077,712 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X154,745,644 - 154,749,544 (-)NCBIRnor_WKY
Rnor_6.0X157,150,071 - 157,154,558 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX157,150,655 - 157,154,555 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,900,009 - 152,904,076 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X45,741,127 - 45,741,920 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X159,628,959 - 159,632,860 (-)NCBI
Celera1136,516,497 - 136,520,397 (+)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
nucleus  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Isoform-specific activation and structural diversity of calmodulin kinase I. Naito Y, etal., J Biol Chem 1997 Dec 19;272(51):32704-8.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
8. Differential regulatory mechanism of Ca2+/calmodulin-dependent protein kinase kinase isoforms. Tokumitsu H, etal., Biochemistry 2001 Nov 20;40(46):13925-32.
9. Isolation and comparison of rat cDNAs encoding Ca2+/calmodulin-dependent protein kinase I isoforms. Yokokura H, etal., Biochim Biophys Acta 1997 Mar 7;1338(1):8-12.
Additional References at PubMed
PMID:11264466   PMID:19292454   PMID:22871113  


Genomics

Comparative Map Data
Pnck
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X151,369,406 - 151,373,508 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX151,369,410 - 151,373,446 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX153,510,581 - 153,514,481 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X157,073,812 - 157,077,712 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X154,745,644 - 154,749,544 (-)NCBIRnor_WKY
Rnor_6.0X157,150,071 - 157,154,558 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX157,150,655 - 157,154,555 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,900,009 - 152,904,076 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X45,741,127 - 45,741,920 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X159,628,959 - 159,632,860 (-)NCBI
Celera1136,516,497 - 136,520,397 (+)NCBICelera
Cytogenetic MapXq37NCBI
PNCK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X153,669,733 - 153,687,771 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 EnsemblX153,669,733 - 153,689,010 (-)EnsemblGRCh38hg38GRCh38
GRCh37X152,935,188 - 152,953,226 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X152,588,417 - 152,592,974 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX153,168,872 - 153,173,500 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX141,592,549 - 141,597,177 (-)NCBIHuRef
CHM1_1X152,809,688 - 152,814,316 (-)NCBICHM1_1
T2T-CHM13v2.0X151,943,398 - 151,961,436 (-)NCBIT2T-CHM13v2.0
Pnck
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X72,699,598 - 72,703,723 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX72,699,600 - 72,703,723 (-)EnsemblGRCm39 Ensembl
GRCm38X73,655,992 - 73,660,117 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX73,655,994 - 73,660,117 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X70,901,333 - 70,905,167 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X69,908,714 - 69,912,548 (-)NCBIMGSCv36mm8
CeleraX64,909,809 - 64,913,643 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX37.38NCBI
Pnck
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955580401,297 - 405,065 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955580401,411 - 406,663 (-)NCBIChiLan1.0ChiLan1.0
PNCK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X153,106,491 - 153,123,897 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,106,491 - 153,123,897 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X143,220,029 - 143,224,659 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PNCK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X121,489,041 - 121,491,356 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX121,489,040 - 121,491,431 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX106,819,067 - 106,822,956 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X124,631,200 - 124,635,086 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X120,400,661 - 120,404,547 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X122,915,659 - 122,919,533 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X122,677,778 - 122,681,665 (-)NCBIUU_Cfam_GSD_1.0
Pnck
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X118,815,663 - 118,819,645 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936809553,431 - 557,427 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936809553,438 - 557,385 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PNCK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX124,425,872 - 124,429,261 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X124,425,867 - 124,430,000 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X141,989,364 - 141,993,498 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PNCK
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X128,099,736 - 128,104,348 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX128,099,682 - 128,103,121 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606565,961,824 - 65,966,436 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pnck
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624946376,856 - 391,192 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624946377,454 - 391,055 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pnck
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:343
Count of miRNA genes:218
Interacting mature miRNAs:252
Transcripts:ENSRNOT00000024227
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat

Markers in Region
RH137751  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X151,369,452 - 151,369,587 (-)MAPPERmRatBN7.2
Rnor_6.0X157,154,378 - 157,154,512NCBIRnor6.0
Rnor_5.01152,903,895 - 152,904,029UniSTSRnor5.0
RGSC_v3.4X159,555,568 - 159,555,702UniSTSRGSC3.4
Celera1136,520,220 - 136,520,354UniSTS
RH 3.4 Map11646.0UniSTS
Cytogenetic MapXq37UniSTS
UniSTS:546957  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X151,369,441 - 151,370,707 (-)MAPPERmRatBN7.2
Rnor_6.0X157,153,258 - 157,154,523NCBIRnor6.0
Rnor_5.01152,902,775 - 152,904,040UniSTSRnor5.0
Celera1136,519,100 - 136,520,365UniSTS
Cytogenetic MapXq37UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 60
Low 2 11 11 11 12 18 22
Below cutoff 2 32 38 28 8 28 6 9 2 8 14 4 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000090795   ⟹   ENSRNOP00000074179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX151,369,410 - 151,373,310 (-)Ensembl
Rnor_6.0 EnsemblX157,150,655 - 157,154,555 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095467   ⟹   ENSRNOP00000094811
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX151,369,410 - 151,373,446 (-)Ensembl
RefSeq Acc Id: NM_017275   ⟹   NP_058971
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X151,369,410 - 151,373,310 (-)NCBI
Rnor_6.0X157,150,655 - 157,154,555 (+)NCBI
Rnor_5.01152,900,009 - 152,904,076 (+)NCBI
RGSC_v3.4X45,741,127 - 45,741,920 (+)RGD
Celera1136,516,497 - 136,520,397 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229572   ⟹   XP_006229634
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X151,369,406 - 151,373,373 (-)NCBI
Rnor_6.0X157,150,604 - 157,154,558 (+)NCBI
Rnor_5.01152,900,009 - 152,904,076 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229573   ⟹   XP_006229635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X151,369,406 - 151,373,508 (-)NCBI
Rnor_6.0X157,150,511 - 157,154,558 (+)NCBI
Rnor_5.01152,900,009 - 152,904,076 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229575   ⟹   XP_006229637
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X151,369,406 - 151,373,373 (-)NCBI
Rnor_6.0X157,150,604 - 157,154,558 (+)NCBI
Rnor_5.01152,900,009 - 152,904,076 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773628   ⟹   XP_008771850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X151,369,406 - 151,372,964 (-)NCBI
Rnor_6.0X157,150,944 - 157,154,558 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058971   ⟸   NM_017275
- UniProtKB: O08767 (UniProtKB/Swiss-Prot),   O70150 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006229635   ⟸   XM_006229573
- Peptide Label: isoform X2
- UniProtKB: O08767 (UniProtKB/Swiss-Prot),   O70150 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006229634   ⟸   XM_006229572
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006229637   ⟸   XM_006229575
- Peptide Label: isoform X2
- UniProtKB: O08767 (UniProtKB/Swiss-Prot),   O70150 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008771850   ⟸   XM_008773628
- Peptide Label: isoform X2
- UniProtKB: O08767 (UniProtKB/Swiss-Prot),   O70150 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074179   ⟸   ENSRNOT00000090795
RefSeq Acc Id: ENSRNOP00000094811   ⟸   ENSRNOT00000095467
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O70150-F1-model_v2 AlphaFold O70150 1-343 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69249 AgrOrtholog
BioCyc Gene G2FUF-669 BioCyc
Ensembl Genes ENSRNOG00000058317 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000074179 ENTREZGENE
  ENSRNOP00000074179.1 UniProtKB/Swiss-Prot
  ENSRNOP00000094811 ENTREZGENE
  ENSRNOP00000094811.1 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000090795 ENTREZGENE
  ENSRNOT00000090795.2 UniProtKB/Swiss-Prot
  ENSRNOT00000095467 ENTREZGENE
  ENSRNOT00000095467.1 UniProtKB/Swiss-Prot
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot
InterPro CaMKI_beta_STKc UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:29660 UniProtKB/Swiss-Prot
NCBI Gene 29660 ENTREZGENE
PANTHER CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE 1B UniProtKB/Swiss-Prot
  SERINE/THREONINE-PROTEIN KINASE UniProtKB/Swiss-Prot
Pfam Pkinase UniProtKB/Swiss-Prot
PhenoGen Pnck PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
SMART S_TKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot
TIGR TC231859
UniProt KCC1B_RAT UniProtKB/Swiss-Prot
  O08767 ENTREZGENE
  O70150 ENTREZGENE
UniProt Secondary O08767 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-22 Pnck  pregnancy up-regulated nonubiquitous CaM kinase  Pnck  pregnancy upregulated non-ubiquitously expressed CaM kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-04-17 Pnck  pregnancy upregulated non-ubiquitously expressed CaM kinase  LOC100360379  Protein Kinase-like  Data Merged 737654 PROVISIONAL
2010-05-06 LOC100360379  Protein Kinase-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2003-04-09 Pnck  pregnancy upregulated non-ubiquitously expressed CaM kinase  Camk1b  calcium/calmodulin-dependent protein kinase 1, beta   Symbol and Name updated 629477 APPROVED
2002-06-10 Camk1b  calcium/calmodulin-dependent protein kinase 1, beta       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression alternatively spliced form CaM kiinase Ibeta2 is exprssed in cerebrum and cerebellum; alternatively spliced form CaM kinase IbetaI is expressed in liver, heart, lung, and kidney, spleen, and testis 68883