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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for POM121 |
Basic gene info. | Gene symbol | POM121 |
Gene name | POM121 transmembrane nucleoporin | |
Synonyms | P145|POM121A | |
Cytomap | UCSC genome browser: 7q11.23 | |
Genomic location | chr7 :72361471-72418843 | |
Type of gene | protein-coding | |
RefGenes | NM_001257190.2, NM_172020.4, | |
Ensembl id | ENSG00000262122 | |
Description | POM121 membrane glycoproteinnuclear envelope pore membrane protein POM 121nuclear envelope pore membrane protein POM 121Anuclear pore membrane protein 121 kDanucleoporin Nup121 | |
Modification date | 20141207 | |
dbXrefs | MIM : 615753 | |
HGNC : HGNC | ||
Ensembl : ENSG00000196313 | ||
HPRD : 11448 | ||
Vega : OTTHUMG00000023527 | ||
Protein | UniProt: Q96HA1 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_POM121 | |
BioGPS: 9883 | ||
Gene Expression Atlas: ENSG00000262122 | ||
The Human Protein Atlas: ENSG00000262122 | ||
Pathway | NCI Pathway Interaction Database: POM121 | |
KEGG: POM121 | ||
REACTOME: POM121 | ||
ConsensusPathDB | ||
Pathway Commons: POM121 | ||
Metabolism | MetaCyc: POM121 | |
HUMANCyc: POM121 | ||
Regulation | Ensembl's Regulation: ENSG00000262122 | |
miRBase: chr7 :72,361,471-72,418,843 | ||
TargetScan: NM_001257190 | ||
cisRED: ENSG00000262122 | ||
Context | iHOP: POM121 | |
cancer metabolism search in PubMed: POM121 | ||
UCL Cancer Institute: POM121 | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for POM121(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: POM121 |
Familial Cancer Database: POM121 |
* 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 | |
REACTOME_METABOLISM_OF_NON_CODING_RNA REACTOME_METABOLISM_OF_RNA REACTOME_METABOLISM_OF_CARBOHYDRATES |
Others | |
OMIM | 615753; gene. 615753; gene. |
Orphanet | |
Disease | KEGG Disease: POM121 |
MedGen: POM121 (Human Medical Genetics with Condition) | |
ClinVar: POM121 | |
Phenotype | MGI: POM121 (International Mouse Phenotyping Consortium) |
PhenomicDB: POM121 |
Mutations for POM121 |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
- 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 | POM121 | chr7 | 72393148 | 72393168 | NCOR2 | chr12 | 124842957 | 124842977 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows POM121 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 |
BF528396 | TAPBPL | 1 | 454 | 12 | 6574056 | 6579811 | POM121 | 455 | 790 | 7 | 72419941 | 72420735 | |
BM715257 | POM121 | 1 | 358 | 7 | 72383860 | 72384217 | POM121 | 358 | 611 | 7 | 72385037 | 72385290 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
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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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=58) | (# total SNVs=20) |
(# total SNVs=1) | (# total SNVs=3) |
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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 |
chr7:72413896-72413896 | p.T857A | 7 |
chr7:72413423-72413423 | p.P699L | 6 |
chr7:72413874-72413874 | p.N849N | 5 |
chr7:72413243-72413243 | p.H639P | 4 |
chr7:72413443-72413443 | p.A706T | 4 |
chr7:72412427-72412427 | p.S367N | 3 |
chr7:72413581-72413581 | p.V752I | 2 |
chr7:72413626-72413626 | p.G767S | 2 |
chr7:72416721-72416721 | p.P968Q | 2 |
chr7:72413539-72413539 | p.P738T | 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 | 4 | 3 | 2 | 8 | 3 |   | 4 |   | 2 | 2 |   | 3 | 6 | 2 |   | 1 | 11 | 9 | 1 | 16 |
# mutation | 4 | 3 | 2 | 7 | 3 |   | 4 |   | 2 | 2 |   | 3 | 6 | 2 |   | 1 | 14 | 10 | 1 | 20 |
nonsynonymous SNV | 3 | 3 | 1 | 6 | 2 |   | 1 |   | 2 | 1 |   | 3 | 4 | 2 |   | 1 | 12 | 8 | 1 | 13 |
synonymous SNV | 1 |   | 1 | 1 | 1 |   | 3 |   |   | 1 |   |   | 2 |   |   |   | 2 | 2 |   | 7 |
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 |
chr7:72398976 | p.N94S,POM121 | 3 |
chr7:72413673 | p.A38T,POM121 | 2 |
chr7:72397386 | p.T769T,POM121 | 2 |
chr7:72416763 | p.F782F,POM121 | 2 |
chr7:72413634 | p.R982H | 2 |
chr7:72413470 | p.P480L,POM121 | 1 |
chr7:72416706 | p.P738S,POM121 | 1 |
chr7:72399003 | p.S822S,POM121 | 1 |
chr7:72413666 | p.K984K | 1 |
chr7:72409924 | p.R156Q,POM121 | 1 |
Other DBs for Point Mutations |
Copy Number for POM121 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 POM121 |
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 |
PRRC2A,BAZ1B,BLM,DNMT1,EIF4H,GTF2I,HCFC1, KCTD7,LMTK2,NUP205,POM121,POM121C,RBM33,SBDSP1, STAG3L1,STAG3L2,STAG3L3,TRRAP,XRCC2,ZC3HAV1L,ZSCAN25 | ASXL1,BAZ2A,HECTD4,DNAH1,DNHD1,EP300,LINC01000, HPS4,INTS3,MED12,NBPF9,NKTR,NUP214,POM121, POM121C,RAD54L2,RBM33,SETD5,SPEN,SRRM2,USP49 |
BAZ1B,EIF4H,GCC1,GIGYF1,LMTK2,NOM1,PAXIP1, POM121,POM121C,RBM33,SLC12A9,TAF6,TNPO3,TRIM56, TRRAP,TYW1,UBN2,USP42,ZKSCAN5,ZSCAN25,ZNF746 | ANKRD11,ATXN2L,BRPF1,CHERP,GCN1L1,KIAA0355,MDN1, KMT2B___KMT2D,MYBBP1A,NUP214,POM121,POM121C,SAFB2,SNAPC4, SRRM2,SYMPK,TUBGCP6,USP36,UTRN,ZMIZ2,ZNF142 |
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 POM121 |
There's no related Drug. |
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Cross referenced IDs for POM121 |
* 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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