|
||||||
|
 | |
| |
| Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples |
| |
| |
| The effects of the RNA editing to the stability of the RNA structures |
| |
| |
| |
| |
|
Editing gene: TNFRSF1A (CAeditome ID:7132) |
Gene summary for TNFRSF1A |
 Gene summary |
| Gene information | Gene symbol | TNFRSF1A | Gene ID | 7132 |
| Gene name | TNF receptor superfamily member 1A | |
| Synonyms | CD120a|FPF|TBP1|TNF-R|TNF-R-I|TNF-R55|TNFAR|TNFR1|TNFR55|TNFR60|p55|p55-R|p60 | |
| Cytomap | 12p13.31 | |
| Type of gene | protein-coding | |
| Description | tumor necrosis factor receptor superfamily member 1ATNF-R1TNF-RITNFR-Itumor necrosis factor binding protein 1tumor necrosis factor receptor type 1tumor necrosis factor-alpha receptor | |
| Modification date | 20210524 | |
| UniProtAcc | P19438 | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| TNFRSF1A | GO:0000139 | Tumor necrosis factor receptor superfamily member 1A | 22801493 |
| TNFRSF1A | GO:0005615 | Tumor necrosis factor receptor superfamily member 1A | 13130484 |
| TNFRSF1A | GO:0045121 | Tumor necrosis factor receptor superfamily member 1A | 17010968 |
| TNFRSF1A | GO:0043235 | Tumor necrosis factor receptor superfamily member 1A | 23382219 |
Top |
RNA A-to-I events for TNFRSF1A |
| RNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure. |
 |
| RNA editing frequencies across 33 cancers of gene: ENSG00000067182.6 |
| RNA A-to-I editing events in Cancer. |
| CAediting_864510(6331220, -), CAediting_864511(6331751, -), CAediting_864512(6331763, -), CAediting_864513(6331764, -), CAediting_864514(6331797, -), CAediting_864515(6331818, -), CAediting_864516(6331879, -), CAediting_864517(6331889, -), CAediting_864518(6331892, -), CAediting_864519(6331993, -), CAediting_864520(6332222, -), CAediting_864521(6332420, -), CAediting_864522(6334613, -), CAediting_864523(6334614, -), CAediting_864524(6334727, -), CAediting_864525(6334737, -), CAediting_864526(6337955, -), CAediting_864527(6338613, -), |
Top |
RNA editing positional annotations for TNFRSF1A using Annovar |
| Protein coding RNA editing(s). |
| CAeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| CAediting_864518 | chr12_6331892_- | nonsynonymous SNV | ENST00000366159.7 | c.A653G | p.K218R | D | . | N |
| Gene structure information of RNA editing(s). |
| CAeditome ID | Position | Variant type |
| CAediting_864510 | chr12_6331220_- | ncRNA_exonic |
| CAediting_864511 | chr12_6331751_- | ncRNA_intronic |
| CAediting_864512 | chr12_6331763_- | ncRNA_intronic |
| CAediting_864513 | chr12_6331764_- | ncRNA_intronic |
| CAediting_864514 | chr12_6331797_- | ncRNA_intronic |
| CAediting_864515 | chr12_6331818_- | ncRNA_intronic |
| CAediting_864516 | chr12_6331879_- | ncRNA_exonic |
| CAediting_864517 | chr12_6331889_- | exonic |
| CAediting_864518 | chr12_6331892_- | exonic |
| CAediting_864519 | chr12_6331993_- | exonic |
| CAediting_864520 | chr12_6332222_- | ncRNA_intronic |
| CAediting_864521 | chr12_6332420_- | ncRNA_intronic |
| CAediting_864522 | chr12_6334613_- | ncRNA_intronic |
| CAediting_864523 | chr12_6334614_- | ncRNA_intronic |
| CAediting_864524 | chr12_6334727_- | ncRNA_intronic |
| CAediting_864525 | chr12_6334737_- | ncRNA_intronic |
| CAediting_864526 | chr12_6337955_- | ncRNA_intronic |
| CAediting_864527 | chr12_6338613_- | ncRNA_intronic |
| Repat-regional RNA editing(s). |
| CAeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| CAediting_864510 | chr12_6331220_- | SINE | MIR | MIRb |
| CAediting_864511 | chr12_6331751_- | SINE | Alu | AluSg |
| CAediting_864512 | chr12_6331763_- | SINE | Alu | AluSg |
| CAediting_864513 | chr12_6331764_- | SINE | Alu | AluSg |
| CAediting_864514 | chr12_6331797_- | SINE | Alu | AluSg |
| CAediting_864515 | chr12_6331818_- | SINE | Alu | AluSg |
| CAediting_864516 | chr12_6331879_- | SINE | Alu | AluSg |
| CAediting_864517 | chr12_6331889_- | SINE | Alu | AluSg |
| CAediting_864518 | chr12_6331892_- | SINE | Alu | AluSg |
| CAediting_864519 | chr12_6331993_- | SINE | Alu | AluSg |
| CAediting_864520 | chr12_6332222_- | SINE | Alu | AluJo |
| CAediting_864521 | chr12_6332420_- | SINE | Alu | AluJo |
| CAediting_864522 | chr12_6334613_- | SINE | Alu | AluJb |
| CAediting_864523 | chr12_6334614_- | SINE | Alu | AluJb |
| CAediting_864524 | chr12_6334727_- | SINE | Alu | AluJb |
| CAediting_864525 | chr12_6334737_- | SINE | Alu | AluJb |
| CAediting_864527 | chr12_6338613_- | SINE | Alu | AluJo |
Top |
RNA A-to-I editing events in the alternative splicing sites for TNFRSF1A |
| RNA A-to-I editing(s) in the alternative splicing sites. |
| AStype | CAeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
| ES | CAediting_864519 | chr12_6331993_- | 6331991:6332013 | 3SS | 1+0i | TTTTTTTTTTTTTGACACAGAGT | 8.24 | TTTTTTTTTTTTTGACACAGGGT | 9.15 |
| IR | CAediting_864519 | chr12_6331993_- | 6331991:6332013 | 3SS | 1+0i | TTTTTTTTTTTTTGACACAGAGT | 8.24 | TTTTTTTTTTTTTGACACAGGGT | 9.15 |
| MEX_2 | CAediting_864519 | chr12_6331993_- | 6331991:6332013 | 3SS | 1+0i | TTTTTTTTTTTTTGACACAGAGT | 8.24 | TTTTTTTTTTTTTGACACAGGGT | 9.15 |
| Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000067182.6.TNFRSF1A. |
| Correlation between RNA A-to-I editing and PSI for ENSG00000067182.6.TNFRSF1A. |
Top |
Differntial gene expression between RNA A-to-I edited versus non-edited samples for TNFRSF1A |
| Differential gene expressions between RNA A-to-I edited and non-edited tumor samples. * The grey color means N/A. |
| Correlation between RNA A-to-I editing and gene expression. |
| - Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
Top |
Protein coding region RNA A-to-I editings for TNFRSF1A |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
Top |
The effects of the RNA editing to the miRNA binding sites for TNFRSF1A |
| **If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page. |
| RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_864512 | chr12_6331763_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-3189-3p | 6331762 | 6331768 | 7mer-m8 | 6331761 | 6331784 | 145.00 | -23.98 |
| CAediting_864512 | chr12_6331763_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-6813-3p | 6331761 | 6331767 | 7mer-m8 | 6331760 | 6331780 | 140.00 | -11.59 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-326 | 6331762 | 6331768 | 7mer-m8 | 6331761 | 6331780 | 140.00 | -13.87 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-330-5p | 6331762 | 6331768 | 7mer-m8 | 6331761 | 6331782 | 140.00 | -19.56 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4314 | 6331763 | 6331769 | 7mer-m8 | 6331762 | 6331779 | 142.00 | -19.99 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-514a-5p | 6331761 | 6331767 | 7mer-m8 | 6331760 | 6331781 | 151.00 | -18.62 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-514a-5p | 6331761 | 6331767 | 7mer-m8 | 6331760 | 6331781 | 151.00 | -18.62 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-514a-5p | 6331761 | 6331767 | 7mer-m8 | 6331760 | 6331781 | 151.00 | -18.62 |
| CAediting_864515 | chr12_6331818_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-433-5p | 6331817 | 6331823 | 7mer-m8 | 6331816 | 6331839 | 159.00 | -21.68 |
| CAediting_864514 | chr12_6331797_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4294 | 6331792 | 6331798 | 7mer-m8 | 6331791 | 6331808 | 150.00 | -18.29 |
| CAediting_864514 | chr12_6331797_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4329 | 6331796 | 6331803 | 8mer-1a | 6331796 | 6331814 | 145.00 | -16.55 |
| CAediting_864511 | chr12_6331751_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-106a-3p | 6331749 | 6331754 | 6mer | 6331748 | 6331769 | 141.00 | -21.13 |
| RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_864515 | chr12_6331818_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4426 | 6331814 | 6331820 | 7mer-m8 | 6331813 | 6331829 | 143 | -10.94 |
| CAediting_864515 | chr12_6331818_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4647 | 6331814 | 6331820 | 7mer-m8 | 6331813 | 6331835 | 150 | -14.2 |
| CAediting_864515 | chr12_6331818_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4662b | 6331814 | 6331820 | 7mer-m8 | 6331813 | 6331834 | 144 | -9.8 |
| CAediting_864515 | chr12_6331818_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-7855-5p | 6331818 | 6331823 | 6mer | 6331817 | 6331836 | 148 | -26.03 |
| CAediting_864513 | chr12_6331764_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-887-5p | 6331763 | 6331770 | 8mer-1a | 6331763 | 6331783 | 142 | -11.92 |
| RNA A-to-I editing in lncRNA gained miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA lost miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to lncRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs lost binding to lncRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_748296 | chr10_51299626_+ | ENSG00000067182.6 | ENST00000534885 | hsa-miR-605-3p | 6328888 | 6328894 | 7mer-m8 | 6328887 | 6328907 | 154 | -22.09 |
| CAediting_688080 | chr9_63819626_+ | ENSG00000067182.6 | ENST00000366159 | hsa-miR-4477b | 6331274 | 6331280 | 7mer-m8 | 6331273 | 6331294 | 140 | -10.71 |
| CAediting_1229414 | chr17_67471546_+ | ENSG00000067182.6 | ENST00000534885 | hsa-miR-548aa | 6330671 | 6330677 | 7mer-m8 | 6330670 | 6330694 | 142 | -13.47 |
| CAediting_1368054 | chr19_46709310_- | ENSG00000067182.6 | ENST00000534885 | hsa-miR-320e | 6329945 | 6329951 | 7mer-m8 | 6329944 | 6329962 | 149 | -21.97 |
| CAediting_77128 | chr1_85133844_+ | ENSG00000067182.6 | ENST00000534885 | hsa-miR-4423-3p | 6329967 | 6329973 | 7mer-m8 | 6329966 | 6329986 | 140 | -16 |
| CAediting_573000 | chr7_92204081_- | ENSG00000067182.6 | ENST00000534885 | hsa-miR-1285-5p | 6329269 | 6329275 | 7mer-m8 | 6329268 | 6329288 | 142 | -17.74 |
| CAediting_1229414 | chr17_67471546_+ | ENSG00000067182.6 | ENST00000543995 | hsa-miR-548aa | 6330671 | 6330677 | 7mer-m8 | 6330670 | 6330694 | 142 | -13.47 |
| CAediting_1368054 | chr19_46709310_- | ENSG00000067182.6 | ENST00000543995 | hsa-miR-320e | 6329945 | 6329951 | 7mer-m8 | 6329944 | 6329962 | 149 | -21.97 |
| CAediting_77128 | chr1_85133844_+ | ENSG00000067182.6 | ENST00000543995 | hsa-miR-4423-3p | 6329967 | 6329973 | 7mer-m8 | 6329966 | 6329986 | 140 | -16 |
| CAediting_573000 | chr7_92204081_- | ENSG00000067182.6 | ENST00000543995 | hsa-miR-1285-5p | 6329269 | 6329275 | 7mer-m8 | 6329268 | 6329288 | 142 | -17.74 |
| CAediting_573000 | chr7_92204081_- | ENSG00000067182.6 | ENST00000540022 | hsa-miR-1285-5p | 6329269 | 6329275 | 7mer-m8 | 6329268 | 6329288 | 142 | -17.74 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000067182.6 | ENST00000534885 | hsa-miR-503-5p | 6329494 | 6329500 | 7mer-m8 | 6329493 | 6329512 | 157 | -29.44 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000067182.6 | ENST00000534885 | hsa-miR-503-5p | 6329155 | 6329160 | 6mer | 6329154 | 6329177 | 140 | -23.13 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000067182.6 | ENST00000543995 | hsa-miR-503-5p | 6329494 | 6329500 | 7mer-m8 | 6329493 | 6329512 | 157 | -29.44 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000067182.6 | ENST00000543995 | hsa-miR-503-5p | 6329155 | 6329160 | 6mer | 6329154 | 6329177 | 140 | -23.13 |
| RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_604450 | chr7_133034877_- | ENSG00000067182.6 | ENST00000366159 | hsa-miR-3654 | 6331553 | 6331559 | 7mer-m8 | 6331552 | 6331570 | 149 | -17.03 |
| Differentially expressed gene-miRNA network |
Top |
The effects of the RNA editing to the stability of the RNA structures for TNFRSF1A |
| - RNA A-to-I editing in mRNA. * Click on the image to enlarge it in a new window. |
| ENST | ENST type | RNA structure without RNA A-to-I editing. | RNA structure with RNA A-to-I editing. |
| RNA A-to-I editing in RNA structures for Minimum free energy (MFE). |
| CAeditom_ID | ENST | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
Top |
Relation with ADAR for TNFRSF1A |
| Correlation between ADAR gene expression and RNA editing frequency |
| Cancer | CAeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
Top |
Relation with cancer stages for TNFRSF1A |
| Correlation between Cancer stages and RNA editing frequency |
| Cancer | Stage_type | CAeditomID | position | P-val | Coeff. |
Top |
Relation with survival for TNFRSF1A |
| Correlation between RNA editing and survival |
| Cancer | CAeditomID | position | KMpvalue | Coxpvalue | CoxHR |
Top |
RelatedDrugs for TNFRSF1A |
| Approved drugs targeting this gene. (DrugBank Version 5.1.8 2021-01-03) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| TNFRSF1A | P19438 | DB11626 | Tasonermin | Tumor necrosis factor receptor superfamily member 1A | BiotechDrug | approved |
Top |
RelatedDiseases for TNFRSF1A |
| Diseases associated with this gene. (DisGeNet 7.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| TNFRSF1A | C1275126 | TNF receptor-associated periodic fever syndrome (TRAPS) | 7 | CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT |
| TNFRSF1A | C0011570 | Mental Depression | 5 | PSYGENET |
| TNFRSF1A | C0011581 | Depressive disorder | 5 | PSYGENET |
| TNFRSF1A | C0026769 | Multiple Sclerosis | 2 | CTD_human |
| TNFRSF1A | C0751324 | Multiple Sclerosis, Acute Fulminating | 2 | CTD_human |
| TNFRSF1A | C0235527 | Heart Failure, Right-Sided | 1 | CTD_human |
| TNFRSF1A | C0036341 | Schizophrenia | 1 | PSYGENET |
| TNFRSF1A | C0238065 | Secondary Biliary Cholangitis | 1 | CTD_human |
| TNFRSF1A | C0242706 | Hyperoxia | 1 | CTD_human |
| TNFRSF1A | C0273115 | Lung Injury | 1 | CTD_human |
| TNFRSF1A | C0392164 | Pulmonary Cystic Fibrosis | 1 | CTD_human |
| TNFRSF1A | C0751422 | Hereditary Autoinflammatory Diseases | 1 | GENOMICS_ENGLAND |
| TNFRSF1A | C0887898 | Experimental Lung Inflammation | 1 | CTD_human |
| TNFRSF1A | C0917798 | Cerebral Ischemia | 1 | CTD_human |
| TNFRSF1A | C1527304 | Allergic Reaction | 1 | CTD_human |
| TNFRSF1A | C1527396 | Fibrocystic Disease of Pancreas | 1 | CTD_human |
| TNFRSF1A | C1959583 | Myocardial Failure | 1 | CTD_human |
| TNFRSF1A | C1961112 | Heart Decompensation | 1 | CTD_human |
| TNFRSF1A | C2350344 | Chronic Lung Injury | 1 | CTD_human |
| TNFRSF1A | C3714636 | Pneumonitis | 1 | CTD_human |
| TNFRSF1A | C3860213 | Autoinflammatory disorder | 1 | GENOMICS_ENGLAND |
| TNFRSF1A | C4551595 | Biliary Cirrhosis, Primary, 1 | 1 | CTD_human |
| TNFRSF1A | C0018801 | Heart failure | 1 | CTD_human |
| TNFRSF1A | C0003123 | Anorexia | 1 | CTD_human |
| TNFRSF1A | C0004364 | Autoimmune Diseases | 1 | CTD_human |
| TNFRSF1A | C0006625 | Cachexia | 1 | CTD_human |
| TNFRSF1A | C0007786 | Brain Ischemia | 1 | CTD_human |
| TNFRSF1A | C0008312 | Primary biliary cirrhosis | 1 | CTD_human |
| TNFRSF1A | C0010674 | Cystic Fibrosis | 1 | CTD_human |
| TNFRSF1A | C0011853 | Diabetes Mellitus, Experimental | 1 | CTD_human |
| TNFRSF1A | C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 1 | CTD_human |
| TNFRSF1A | C0015967 | Fever | 1 | CTD_human |
| TNFRSF1A | C0149910 | Intermittent joint effusion | 1 | ORPHANET |
| TNFRSF1A | C0018802 | Congestive heart failure | 1 | CTD_human |
| TNFRSF1A | C0020517 | Hypersensitivity | 1 | CTD_human |
| TNFRSF1A | C0023212 | Left-Sided Heart Failure | 1 | CTD_human |
| TNFRSF1A | C0023892 | Biliary cirrhosis | 1 | CTD_human |
| TNFRSF1A | C0032285 | Pneumonia | 1 | CTD_human |
| TNFRSF1A | C0032300 | Lobar Pneumonia | 1 | CTD_human |
| TNFRSF1A | C0002152 | Alloxan Diabetes | 1 | CTD_human |
| TNFRSF1A | C0038433 | Streptozotocin Diabetes | 1 | CTD_human |
