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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for GUCY2F |
Basic gene info. | Gene symbol | GUCY2F |
Gene name | guanylate cyclase 2F, retinal | |
Synonyms | CYGF|GC-F|GUC2DL|GUC2F|RETGC-2|ROS-GC2 | |
Cytomap | UCSC genome browser: Xq22 | |
Genomic location | chrX :108616134-108725285 | |
Type of gene | protein-coding | |
RefGenes | NM_001522.2, | |
Ensembl id | ENSG00000101890 | |
Description | guanylate cyclase 2D-like, membrane (retina-specific)guanylate cyclase Fretinal guanylyl cyclase 2rod outer segment membrane guanylate cyclase 2 | |
Modification date | 20141207 | |
dbXrefs | MIM : 300041 | |
HGNC : HGNC | ||
Ensembl : ENSG00000101890 | ||
HPRD : 02078 | ||
Vega : OTTHUMG00000022184 | ||
Protein | UniProt: P51841 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GUCY2F | |
BioGPS: 2986 | ||
Gene Expression Atlas: ENSG00000101890 | ||
The Human Protein Atlas: ENSG00000101890 | ||
Pathway | NCI Pathway Interaction Database: GUCY2F | |
KEGG: GUCY2F | ||
REACTOME: GUCY2F | ||
ConsensusPathDB | ||
Pathway Commons: GUCY2F | ||
Metabolism | MetaCyc: GUCY2F | |
HUMANCyc: GUCY2F | ||
Regulation | Ensembl's Regulation: ENSG00000101890 | |
miRBase: chrX :108,616,134-108,725,285 | ||
TargetScan: NM_001522 | ||
cisRED: ENSG00000101890 | ||
Context | iHOP: GUCY2F | |
cancer metabolism search in PubMed: GUCY2F | ||
UCL Cancer Institute: GUCY2F | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for GUCY2F(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: GUCY2F |
Familial Cancer Database: GUCY2F |
* This gene is included in those cancer gene databases. |
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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/ |
Metabolic Pathway Description | |
KEGG_PURINE_METABOLISM |
Others | |
OMIM | 300041; gene. |
Orphanet | |
Disease | KEGG Disease: GUCY2F |
MedGen: GUCY2F (Human Medical Genetics with Condition) | |
ClinVar: GUCY2F | |
Phenotype | MGI: GUCY2F (International Mouse Phenotyping Consortium) |
PhenomicDB: GUCY2F |
Mutations for GUCY2F |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows GUCY2F 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 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=152) | (# total SNVs=42) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* 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 |
chr23:108719136-108719136 | p.R10R | 4 |
chr23:108691389-108691389 | p.R493H | 3 |
chr23:108691390-108691390 | p.R493C | 3 |
chr23:108619137-108619137 | p.N1106K | 3 |
chr23:108673541-108673541 | p.E596K | 3 |
chr23:108684589-108684589 | p.A564A | 3 |
chr23:108719137-108719137 | p.R10P | 2 |
chr23:108619384-108619384 | p.E1055* | 2 |
chr23:108647691-108647691 | p.R664I | 2 |
chr23:108631735-108631735 | p.R980L | 2 |
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SNV Counts per Each Loci in TCGA data |
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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 | 6 | 1 | 31 | 2 |   | 6 |   | 6 |   |   | 17 | 8 | 3 | 1 | 1 | 13 | 6 |   | 18 |
# mutation | 2 | 6 | 1 | 28 | 2 |   | 5 |   | 6 |   |   | 19 | 9 | 3 | 1 | 1 | 15 | 7 |   | 26 |
nonsynonymous SNV | 1 | 4 |   | 19 | 1 |   | 4 |   | 5 |   |   | 16 | 4 | 3 | 1 | 1 | 10 | 6 |   | 22 |
synonymous SNV | 1 | 2 | 1 | 9 | 1 |   | 1 |   | 1 |   |   | 3 | 5 |   |   |   | 5 | 1 |   | 4 |
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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Top 10 SNVs Having the Most Samples in TCGA data |
* 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 |
chrX:108719136 | p.R10R | 4 |
chrX:108673541 | p.E596K | 3 |
chrX:108708574 | p.S404L | 2 |
chrX:108691390 | p.E1055G | 2 |
chrX:108619383 | p.Q259H | 2 |
chrX:108708626 | p.K1052R | 2 |
chrX:108636218 | p.Y831H | 2 |
chrX:108619392 | p.F595F | 2 |
chrX:108673542 | p.R493C | 2 |
chrX:108696910 | p.P280S | 2 |
Other DBs for Point Mutations |
Copy Number for GUCY2F in TCGA |
* 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. |
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 GUCY2F |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* 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 |
ADAMTS3,ASUN,C12orf71,NUTM1,CCL1,CREB5,E2F6, FGFR1OP2,GOLGA6L1,GOLGA6L6,GOLGA8CP,GOLGA8DP,GOLT1B,GUCY2F, LIN28B,LOC348840,OR3A2,RECQL,SNCAIP,SSPN,TBX18 | ADAM3A,APOC1,CELA1,CHIT1,DEC1,GUCY2F,MAGEA9B, MGAM,LINC00112,NKX2-6,PKD2L1,PPIAL4E,PRAMEF22,SCARNA11, SLC17A4,SNORA18,SNORA27,SNORA56,SNORA67,STRA8,TEX101 |
ACTR3BP2,GUCY2F,HLA-L,HSFX1,LCE2B,LOC653544,LOC653545, LOC728410,OR6N2,OR7E37P,OR8B3,PPIAL4B,PRAMEF17,PRAMEF3, RBMY1B,REXO1L1P,SNORA38,SNORD104,SNORD16,SNORD35B,SNORD58C, SNORD62A,SNORD76,SNORD88B,SNORD88C,TP | CLCNKB,CLDN17,CPN2,CRH,CST4,CYP2W1,GABRA6, GUCY2F,INSL5,ITGAD,KCNK15,KIAA1210,KLK3,KRTAP3-3, NEUROD1,RASSF10,RIMS4,TAS2R1,TNNC1,TPH1,TTR |
Co-Expressed gene's Protein-protein interaction Network Plot |
* 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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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for GUCY2F |
There's no related Drug. |
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Cross referenced IDs for GUCY2F |
* 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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