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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PRKAA2 |
Basic gene info. | Gene symbol | PRKAA2 |
Gene name | protein kinase, AMP-activated, alpha 2 catalytic subunit | |
Synonyms | AMPK|AMPK2|AMPKa2|PRKAA | |
Cytomap | UCSC genome browser: 1p31 | |
Genomic location | chr1 :57110989-57181008 | |
Type of gene | protein-coding | |
RefGenes | NM_006252.3, | |
Ensembl id | ENSG00000162409 | |
Description | 5'-AMP-activated protein kinase catalytic subunit alpha-25'-AMP-activated protein kinase, catalytic alpha-2 chainACACA kinaseAMP-activated protein kinase alpha-2 subunit variant 2AMP-activated protein kinase alpha-2 subunit variant 3AMPK alpha 2AMPK | |
Modification date | 20141207 | |
dbXrefs | MIM : 600497 | |
HGNC : HGNC | ||
Ensembl : ENSG00000162409 | ||
HPRD : 02735 | ||
Vega : OTTHUMG00000008282 | ||
Protein | UniProt: P54646 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PRKAA2 | |
BioGPS: 5563 | ||
Gene Expression Atlas: ENSG00000162409 | ||
The Human Protein Atlas: ENSG00000162409 | ||
Pathway | NCI Pathway Interaction Database: PRKAA2 | |
KEGG: PRKAA2 | ||
REACTOME: PRKAA2 | ||
ConsensusPathDB | ||
Pathway Commons: PRKAA2 | ||
Metabolism | MetaCyc: PRKAA2 | |
HUMANCyc: PRKAA2 | ||
Regulation | Ensembl's Regulation: ENSG00000162409 | |
miRBase: chr1 :57,110,989-57,181,008 | ||
TargetScan: NM_006252 | ||
cisRED: ENSG00000162409 | ||
Context | iHOP: PRKAA2 | |
cancer metabolism search in PubMed: PRKAA2 | ||
UCL Cancer Institute: PRKAA2 | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for PRKAA2(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: PRKAA2 |
Familial Cancer Database: PRKAA2 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
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REACTOME_INTEGRATION_OF_ENERGY_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
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OMIM | 600497; gene. |
Orphanet | |
Disease | KEGG Disease: PRKAA2 |
MedGen: PRKAA2 (Human Medical Genetics with Condition) | |
ClinVar: PRKAA2 | |
Phenotype | MGI: PRKAA2 (International Mouse Phenotyping Consortium) |
PhenomicDB: PRKAA2 |
Mutations for PRKAA2 |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
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- Statistics for Tissue and Mutation type | Top |
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- For Inter-chromosomal Variations |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
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- For Intra-chromosomal Variations |
There's no intra-chromosomal structural variation. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | PRKAA2 | chr1 | 57158877 | 57158897 | PPP2R1A | chr19 | 52695828 | 52695848 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PRKAA2 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
AI732856 | PRKAA2 | 27 | 415 | 1 | 57169907 | 57171911 | PRKAA2 | 412 | 471 | 1 | 57171934 | 57171993 |
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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   | 2 | |||
GAIN (# sample) |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   | 2 | |||
LOSS (# sample) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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Stat. for Non-Synonymous SNVs (# total SNVs=64) | (# total SNVs=17) |
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(# total SNVs=6) | (# total SNVs=1) |
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* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr1:57157094-57157094 | p.F90fs*3 | 3 |
chr1:57170075-57170075 | p.R407Q | 3 |
chr1:57173294-57173294 | p.S523G | 3 |
chr1:57173243-57173243 | p.T506A | 3 |
chr1:57161759-57161759 | p.R239C | 3 |
chr1:57169752-57169752 | p.K299K | 2 |
chr1:57171796-57171796 | p.R442K | 2 |
chr1:57161811-57161811 | p.R256Q | 2 |
chr1:57169756-57169756 | p.E301K | 2 |
chr1:57158174-57158174 | p.F158F | 2 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 2 | 2 |   | 16 |   |   | 3 |   |   |   |   | 8 | 4 | 3 |   | 1 | 24 | 8 |   | 9 |
# mutation | 3 | 2 |   | 17 |   |   | 3 |   |   |   |   | 8 | 4 | 3 |   | 1 | 25 | 9 |   | 13 |
nonsynonymous SNV | 3 | 2 |   | 12 |   |   | 2 |   |   |   |   | 5 | 4 | 2 |   | 1 | 19 | 6 |   | 10 |
synonymous SNV |   |   |   | 5 |   |   | 1 |   |   |   |   | 3 |   | 1 |   |   | 6 | 3 |   | 3 |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr1:57173243 | p.T506A | 3 |
chr1:57169985 | p.S377N | 2 |
chr1:57170075 | p.R407Q | 2 |
chr1:57158174 | p.E301K | 2 |
chr1:57169911 | p.T506T | 2 |
chr1:57159464 | p.R439C | 2 |
chr1:57171786 | p.R442K | 2 |
chr1:57171796 | p.F158F | 2 |
chr1:57161759 | p.R239C | 2 |
chr1:57173245 | p.M352I | 2 |
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* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
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cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for PRKAA2 |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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ACLY,AR,C1orf168,C9orf152,DPY19L3,EDEM3,GALNT7, GCC2,GDPD1,LCOR,LRRC8B,MUC5B,MYSM1,NSF, PRKAA2,SECISBP2L,SLC44A4,SPATA6,TRIP11,UCP3,YPEL2 | ASB14,ASB4,BEST3,CAPN3,CMYA5,IP6K3,JPH1, KCNQ5,MYBPC1,MYLK3,MYLK4,MYOM2,MYOZ2,OBSCN, PHKA1,PPP2R3A,PRKAA2,SYNPO2L,TXLNB,UGT3A1,WDR62 | ||||
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ASAP1,DYNLRB2,ETNK2,GFRA3,HFM1,HOOK3,HSF1, LAPTM4B,LRRC14,PRKAA2,PTP4A3,RB1CC1,SCRIB,TSNARE1, UBR5,ZFP41,ZNF34,ZNF517,ZNF696,ZNF707,ZSCAN10 | AMOTL1,ARHGAP10,CLMP,CPED1,CAP2,DCBLD2,EML1, MAPK4,MSRB3,NPHP1,PALLD,PARD6G,PKD2,PRKAA2, PTMS,SOBP,SORBS2,SUSD4,TMEM47,ZAK,ZMYND11 |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Pharmacological Information for PRKAA2 |
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DB Category | DB Name | DB's ID and Url link |
Chemistry | BindingDB | P54646; -. |
Chemistry | ChEMBL | CHEMBL2116; -. |
Chemistry | GuidetoPHARMACOLOGY | 1542; -. |
Organism-specific databases | PharmGKB | PA33745; -. |
Organism-specific databases | CTD | 5563; -. |
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* Gene Centered Interaction Network. |
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* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00131 | protein kinase, AMP-activated, alpha 2 catalytic subunit | approved; nutraceutical | Adenosine monophosphate | ![]() | ![]() |
DB00171 | protein kinase, AMP-activated, alpha 2 catalytic subunit | approved; nutraceutical | Adenosine triphosphate | ![]() | ![]() |
DB00412 | protein kinase, AMP-activated, alpha 2 catalytic subunit | approved; investigational | Rosiglitazone | ![]() | ![]() |
DB01132 | protein kinase, AMP-activated, alpha 2 catalytic subunit | approved; investigational | Pioglitazone | ![]() | ![]() |
DB00331 | protein kinase, AMP-activated, alpha 2 catalytic subunit | approved | Metformin | ![]() | ![]() |
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Cross referenced IDs for PRKAA2 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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