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| Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples |
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| The effects of the RNA editing to the stability of the RNA structures |
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Editing gene: SMARCA1 (CAeditome ID:6594) |
Gene summary for SMARCA1 |
 Gene summary |
| Gene information | Gene symbol | SMARCA1 | Gene ID | 6594 |
| Gene name | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 | |
| Synonyms | ISWI|NURF140|SNF2L|SNF2L1|SNF2LB|SNF2LT|SWI|SWI2|hSNF2L | |
| Cytomap | Xq25-q26.1 | |
| Type of gene | protein-coding | |
| Description | probable global transcription activator SNF2L1ATP-dependent helicase SMARCA1SNF2-like 1global transcription activator homologous sequencenucleosome-remodeling factor subunit SNF2Lsucrose nonfermenting 2-like protein 1 | |
| Modification date | 20210518 | |
| UniProtAcc | P28370 | |
| Context | - 31093468(Loss of Expression of a Novel Chromatin Remodeler SMARCA1 in Soft Tissue Sarcoma) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| SMARCA1 | GO:0043044 | Probable global transcription activator SNF2L1 | 15640247 |
| SMARCA1 | GO:0008094 | Probable global transcription activator SNF2L1 | 14609955 |
| SMARCA1 | GO:0070615 | Probable global transcription activator SNF2L1 | 15640247 |
| SMARCA1 | GO:0036310 | Probable global transcription activator SNF2L1 | 22705370 |
| SMARCA1 | GO:0006338 | Probable global transcription activator SNF2L1 | 14609955 |
| SMARCA1 | GO:0005634 | Probable global transcription activator SNF2L1 | 14609955 |
| SMARCA1 | GO:0005654 | Probable global transcription activator SNF2L1 | 0000052 |
| SMARCA1 | GO:0043231 | Probable global transcription activator SNF2L1 | 0000052 |
| SMARCA1 | GO:0016589 | Probable global transcription activator SNF2L1 | 20850016 |
| SMARCA1 | GO:0090537 | Probable global transcription activator SNF2L1 | 15640247 |
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RNA A-to-I events for SMARCA1 |
| RNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure. |
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| RNA editing frequencies across 33 cancers of gene: ENSG00000102038.14 |
| RNA A-to-I editing events in Cancer. |
| CAediting_1523275(129451739, -), CAediting_1523276(129451801, -), CAediting_1523277(129451842, -), CAediting_1523278(129451887, -), CAediting_1523279(129460529, -), CAediting_1523280(129463815, -), CAediting_1523281(129489032, -), CAediting_1523282(129511962, -), |
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RNA editing positional annotations for SMARCA1 using Annovar |
| Protein coding RNA editing(s). |
| CAeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| CAediting_1523281 | chrX_129489032_- | nonsynonymous SNV | ENST00000371121.4 | c.A2002G | p.M668V | D | B | D |
| CAediting_1523281 | chrX_129489032_- | nonsynonymous SNV | ENST00000371122.7 | c.A2002G | p.M668V | D | B | D |
| CAediting_1523281 | chrX_129489032_- | nonsynonymous SNV | ENST00000371123.4 | c.A1966G | p.M656V | D | B | D |
| CAediting_1523282 | chrX_129511962_- | nonsynonymous SNV | ENST00000371121.4 | c.A652G | p.T218A | D | D | D |
| CAediting_1523282 | chrX_129511962_- | nonsynonymous SNV | ENST00000371122.7 | c.A652G | p.T218A | D | D | D |
| CAediting_1523282 | chrX_129511962_- | nonsynonymous SNV | ENST00000371123.4 | c.A652G | p.T218A | D | D | D |
| Gene structure information of RNA editing(s). |
| CAeditome ID | Position | Variant type |
| CAediting_1523275 | chrX_129451739_- | ncRNA_intronic |
| CAediting_1523276 | chrX_129451801_- | ncRNA_intronic |
| CAediting_1523277 | chrX_129451842_- | ncRNA_intronic |
| CAediting_1523278 | chrX_129451887_- | ncRNA_intronic |
| CAediting_1523279 | chrX_129460529_- | ncRNA_intronic |
| CAediting_1523280 | chrX_129463815_- | ncRNA_intronic |
| CAediting_1523281 | chrX_129489032_- | exonic |
| CAediting_1523282 | chrX_129511962_- | exonic |
| Repat-regional RNA editing(s). |
| CAeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| CAediting_1523275 | chrX_129451739_- | SINE | Alu | AluY |
| CAediting_1523276 | chrX_129451801_- | SINE | Alu | AluY |
| CAediting_1523277 | chrX_129451842_- | SINE | Alu | AluY |
| CAediting_1523278 | chrX_129451887_- | SINE | Alu | AluY |
| CAediting_1523279 | chrX_129460529_- | SINE | Alu | AluSz |
| CAediting_1523280 | chrX_129463815_- | SINE | Alu | AluSq2 |
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RNA A-to-I editing events in the alternative splicing sites for SMARCA1 |
| 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 |
| Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000102038.14.SMARCA1. |
| Correlation between RNA A-to-I editing and PSI for ENSG00000102038.14.SMARCA1. |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for SMARCA1 |
| 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. |
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Protein coding region RNA A-to-I editings for SMARCA1 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
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The effects of the RNA editing to the miRNA binding sites for SMARCA1 |
| **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 |
| 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 |
| 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 |
| 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 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for SMARCA1 |
| - 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 |
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Relation with ADAR for SMARCA1 |
| 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.) |
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Relation with cancer stages for SMARCA1 |
| Correlation between Cancer stages and RNA editing frequency |
| Cancer | Stage_type | CAeditomID | position | P-val | Coeff. |
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Relation with survival for SMARCA1 |
| Correlation between RNA editing and survival |
| Cancer | CAeditomID | position | KMpvalue | Coxpvalue | CoxHR |
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RelatedDrugs for SMARCA1 |
| 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 |
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RelatedDiseases for SMARCA1 |
| Diseases associated with this gene. (DisGeNet 7.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| SMARCA1 | C0265338 | Coffin-Siris syndrome | 2 | CLINGEN;GENOMICS_ENGLAND |
| SMARCA1 | C0033578 | Prostatic Neoplasms | 1 | CTD_human |
| SMARCA1 | C0376358 | Malignant neoplasm of prostate | 1 | CTD_human |
