|
||||||
|
 | |
| |
| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
| |
| |
| The effects of the RNA editing to the stability of the RNA structures |
| |
| |
| |
|
Gene summary for MFSD2A |
 Gene summary |
| Gene information | Gene symbol | MFSD2A | Gene ID | 84879 |
| Gene name | major facilitator superfamily domain containing 2A | |
| Synonyms | MCPH15|MFSD2|NLS1 | |
| Cytomap | 1p34.2 | |
| Type of gene | protein-coding | |
| Description | sodium-dependent lysophosphatidylcholine symporter 1major facilitator superfamily domain-containing protein 2Asodium-dependent LPC symporter 1 | |
| Modification date | 20200313 | |
| UniProtAcc | Q8NA29, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| MFSD2A | GO:0051977 | lysophospholipid transport | 24828044 |
Top |
RNA A-to-I events for MFSD2A |
| RNA A-to-I editing events in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. * This pie chart shows the number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
 |
| RNA editing frequencies across three data sets. |
 |
| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
 |
| RNA A-to-I editing events in AD. |
| ADediting_111594(39956782, +), ADediting_111595(39959723, +), ADediting_111596(39959737, +), ADediting_111597(39959754, +), ADediting_111598(39959772, +), ADediting_111599(39959775, +), ADediting_111600(39959776, +), ADediting_111601(39959777, +), ADediting_111602(39959778, +), ADediting_111603(39959780, +), ADediting_111604(39959784, +), ADediting_111605(39959799, +), ADediting_111606(39959802, +), ADediting_111607(39959803, +), ADediting_111608(39959809, +), ADediting_111609(39959818, +), ADediting_111610(39959823, +), ADediting_111611(39959828, +), ADediting_111612(39959859, +), ADediting_111613(39959862, +), ADediting_111614(39959885, +), ADediting_111615(39960180, +), ADediting_111616(39961907, +), ADediting_111617(39961920, +), ADediting_111618(39961938, +), ADediting_111619(39961948, +), ADediting_111620(39961974, +), ADediting_111621(39961987, +), ADediting_111622(39961988, +), ADediting_111623(39962015, +), ADediting_111624(39962021, +), ADediting_111625(39962023, +), ADediting_111626(39962026, +), ADediting_111627(39962030, +), ADediting_111628(39962038, +), ADediting_111629(39962039, +), ADediting_111630(39962040, +), ADediting_111631(39962042, +), ADediting_111632(39962057, +), ADediting_111633(39962076, +), ADediting_1520028(39959724, +), |
Top |
RNA editing positional annotations for MFSD2A using Annovar |
| Protein coding RNA editing(s). |
| ADeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| Gene structure information of RNA editing(s). |
| ADeditome ID | Position | Variant type |
| ADediting_111594 | chr1_39956782_+ | intronic |
| ADediting_111595 | chr1_39959723_+ | intronic |
| ADediting_111596 | chr1_39959737_+ | intronic |
| ADediting_111597 | chr1_39959754_+ | intronic |
| ADediting_111598 | chr1_39959772_+ | intronic |
| ADediting_111599 | chr1_39959775_+ | intronic |
| ADediting_111600 | chr1_39959776_+ | intronic |
| ADediting_111601 | chr1_39959777_+ | intronic |
| ADediting_111602 | chr1_39959778_+ | intronic |
| ADediting_111603 | chr1_39959780_+ | intronic |
| ADediting_111604 | chr1_39959784_+ | intronic |
| ADediting_111605 | chr1_39959799_+ | intronic |
| ADediting_111606 | chr1_39959802_+ | intronic |
| ADediting_111607 | chr1_39959803_+ | intronic |
| ADediting_111608 | chr1_39959809_+ | intronic |
| ADediting_111609 | chr1_39959818_+ | intronic |
| ADediting_111610 | chr1_39959823_+ | intronic |
| ADediting_111611 | chr1_39959828_+ | intronic |
| ADediting_111612 | chr1_39959859_+ | intronic |
| ADediting_111613 | chr1_39959862_+ | intronic |
| ADediting_111614 | chr1_39959885_+ | intronic |
| ADediting_111615 | chr1_39960180_+ | intronic |
| ADediting_111616 | chr1_39961907_+ | intronic |
| ADediting_111617 | chr1_39961920_+ | intronic |
| ADediting_111618 | chr1_39961938_+ | intronic |
| ADediting_111619 | chr1_39961948_+ | intronic |
| ADediting_111620 | chr1_39961974_+ | intronic |
| ADediting_111621 | chr1_39961987_+ | intronic |
| ADediting_111622 | chr1_39961988_+ | intronic |
| ADediting_111623 | chr1_39962015_+ | intronic |
| ADediting_111624 | chr1_39962021_+ | intronic |
| ADediting_111625 | chr1_39962023_+ | intronic |
| ADediting_111626 | chr1_39962026_+ | intronic |
| ADediting_111627 | chr1_39962030_+ | intronic |
| ADediting_111628 | chr1_39962038_+ | intronic |
| ADediting_111629 | chr1_39962039_+ | intronic |
| ADediting_111630 | chr1_39962040_+ | intronic |
| ADediting_111631 | chr1_39962042_+ | intronic |
| ADediting_111632 | chr1_39962057_+ | intronic |
| ADediting_111633 | chr1_39962076_+ | intronic |
| ADediting_1520028 | chr1_39959724_+ | intronic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_111594 | chr1_39956782_+ | SINE | Alu | Name=AluY |
| ADediting_111595 | chr1_39959723_+ | SINE | MIR | Name=MIRb |
| ADediting_111596 | chr1_39959737_+ | SINE | MIR | Name=MIRb |
| ADediting_111597 | chr1_39959754_+ | SINE | MIR | Name=MIRb |
| ADediting_111598 | chr1_39959772_+ | SINE | MIR | Name=MIRb |
| ADediting_111599 | chr1_39959775_+ | SINE | MIR | Name=MIRb |
| ADediting_111600 | chr1_39959776_+ | SINE | MIR | Name=MIRb |
| ADediting_111601 | chr1_39959777_+ | SINE | MIR | Name=MIRb |
| ADediting_111602 | chr1_39959778_+ | SINE | MIR | Name=MIRb |
| ADediting_111603 | chr1_39959780_+ | SINE | MIR | Name=MIRb |
| ADediting_111604 | chr1_39959784_+ | SINE | MIR | Name=MIRb |
| ADediting_111605 | chr1_39959799_+ | SINE | MIR | Name=MIRb |
| ADediting_111606 | chr1_39959802_+ | SINE | MIR | Name=MIRb |
| ADediting_111607 | chr1_39959803_+ | SINE | MIR | Name=MIRb |
| ADediting_1520028 | chr1_39959724_+ | SINE | MIR | Name=MIRb |
Top |
RNA A-to-I editing events in the alternative splicing sites for MFSD2A |
| RNA A-to-I editing(s) in the alternative splicing sites. |
| AStype | ADeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
| Differential pencent of spliced in (PSI) between RNA A-to-I edited and non-edited samples |
Top |
Differntial gene expression between RNA A-to-I edited versus non-edited samples for MFSD2A |
| Distribution of the averaged gene expression in AD and control with or without RNA A-to-I editing event. * The grey color means N/A. |
| Distribution of the averaged gene isoform expression in AD and control with or without RNA A-to-I editing event. |
 | |
 | |
 | |
| - 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. |
 |
 |
| - Differentially expressed transcript between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
Top |
Protein coding region RNA A-to-I editings for MFSD2A |
| - 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 MFSD2A |
| RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | 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. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA lost miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs lost binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | 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. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_1337757 | chr7_5495852_- | ENSG00000168389.17 | ENST00000372809.5 | MFSD2A-201 | hsa-miR-589-3p | chr1 | 39969727 | 39969733 | 7mer-m8 | 39969713 | 39969734 | 161 | -35.48 |
| ADediting_1337757 | chr7_5495852_- | ENSG00000168389.17 | ENST00000372811.9 | MFSD2A-202 | hsa-miR-589-3p | chr1 | 39969727 | 39969733 | 7mer-m8 | 39969713 | 39969734 | 161 | -35.48 |
| ADediting_1337757 | chr7_5495852_- | ENSG00000168389.17 | ENST00000420632.6 | MFSD2A-203 | hsa-miR-589-3p | chr1 | 39969727 | 39969733 | 7mer-m8 | 39969713 | 39969734 | 161 | -35.48 |
| RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| Differentially expressed gene-miRNA network |
Top |
The effects of the RNA editing to the stability of the RNA structures for MFSD2A |
| - 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 miRNA. |
| ADeditom_ID | ENST | mir_ID | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in mRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in lncRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
Top |
Relation with ADAR for MFSD2A |
| Correlation between ADAR gene expression and RNA editing frequency |
| Tissue | ADeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| DLPFC | ADediting_111596 | chr1_39959737_+ | 0.0477163735128673 | 0.112547096887162 | 0.520230520857977 | 0.0366551871333227 | 1.28744076689497e-09 | 0.335979484548289 |
| DLPFC | ADediting_111598 | chr1_39959772_+ | 0.000408157032478715 | 0.199543847727095 | 0.16287687797039 | 0.0794524799274552 | 6.00538515933331e-08 | 0.301772854747442 |
| DLPFC | ADediting_111599 | chr1_39959775_+ | 0.000139974543372639 | 0.214633040484474 | 0.0819197756206399 | 0.0989628216675595 | 1.64852691243334e-09 | 0.333902481109234 |
| DLPFC | ADediting_111600 | chr1_39959776_+ | 0.000707114120791551 | 0.191350202379946 | 0.178823086167678 | 0.0765532493506904 | 6.42046165397065e-09 | 0.322193294573823 |
| DLPFC | ADediting_111603 | chr1_39959780_+ | 0.00111870625579188 | 0.18424664455115 | 0.139603601691483 | 0.084094264694745 | 2.08031240444312e-08 | 0.31164885507094 |
| DLPFC | ADediting_111609 | chr1_39959818_+ | 0.000415515367388596 | 0.199282515825883 | 0.0370244211567418 | 0.118509173297819 | 1.49767784749464e-09 | 0.334710555886976 |
| DLPFC | ADediting_111610 | chr1_39959823_+ | 0.0055393393583028 | 0.157199736719644 | 0.163677414575806 | 0.0793019895710964 | 2.1618568882965e-10 | 0.350530515051899 |
| DLPFC | ADediting_111611 | chr1_39959828_+ | 0.0205152420304444 | 0.13154388136899 | 0.283505675333654 | 0.0611025287602379 | 3.58185616056999e-10 | 0.346488414450313 |
| DLPFC | ADediting_111614 | chr1_39959885_+ | 0.000216625207347442 | 0.208604417668454 | 0.0527988601359103 | 0.110099531214781 | 7.58663767231989e-11 | 0.358735077632377 |
| DLPFC | ADediting_111616 | chr1_39961907_+ | 0.00220048159643592 | 0.173278343985268 | 0.0649875843076523 | 0.104942838123045 | 3.57697709320617e-09 | 0.327292170308471 |
| DLPFC | ADediting_111619 | chr1_39961948_+ | 0.00191801464924182 | 0.175556882960308 | 0.149328396200079 | 0.0820882034031861 | 1.71801720620209e-10 | 0.352351285546478 |
| DLPFC | ADediting_111621 | chr1_39961987_+ | 0.00466438731407656 | 0.160302915678746 | 0.186729461303907 | 0.0751864756380475 | 7.38854384014227e-09 | 0.320954913252673 |
| DLPFC | ADediting_111622 | chr1_39961988_+ | 0.0223272086268591 | 0.129740547994919 | 0.754283927140697 | 0.0178476453982653 | 9.85476403899956e-15 | 0.420785255689279 |
| DLPFC | ADediting_111624 | chr1_39962021_+ | 0.00128151151338973 | 0.182092942572869 | 0.164560922176571 | 0.079136541204514 | 1.21051966863796e-10 | 0.355103264940977 |
| DLPFC | ADediting_111626 | chr1_39962026_+ | 0.012057842001464 | 0.142431534846914 | 0.648148837590528 | 0.0260188283481827 | 4.81993933698484e-14 | 0.410682788545275 |
| DLPFC | ADediting_111627 | chr1_39962030_+ | 7.41574653993032e-05 | 0.223114912412423 | 0.0341393744526108 | 0.120366745405414 | 2.05627466017511e-10 | 0.350928246038786 |
| DLPFC | ADediting_111628 | chr1_39962038_+ | 6.70320344602122e-08 | 0.300727508899742 | 0.000461394433142314 | 0.197744007335567 | 3.43540541916405e-08 | 0.307021364925217 |
| DLPFC | ADediting_111629 | chr1_39962039_+ | 2.11734721554672e-05 | 0.238962954255234 | 0.0151213415456452 | 0.137881386929323 | 1.31880012481199e-10 | 0.354432319291111 |
| DLPFC | ADediting_111630 | chr1_39962040_+ | 6.69029494838607e-06 | 0.252630660493977 | 0.00205515642308848 | 0.174414907734125 | 1.83629164979716e-10 | 0.351824964342894 |
| Correlation between ADAR gene expression and this gene's expression |
| Tissue | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| DLPFC | 4.9443173269724e-05 | 0.228362410491826 | 1.98444595414707e-05 | 0.239753481246698 | 7.02354170264561e-09 | 0.32140229811628 |
| AC | 1.1089386291043e-43 | 0.734694389187001 | 1.78343470609267e-29 | 0.633680197009371 | 4.75935339769151e-22 | 0.560117314284223 |
| FP | 0.190736950658068 | 0.0985242376795826 | 0.614549777777445 | -0.0379997197934145 | 1.75208397073571e-09 | 0.431882296729979 |
| STG | 0.0121650201751712 | 0.272456865342704 | 0.791516355950182 | -0.0292745479898017 | 0.000139934199484709 | 0.403733172499063 |
Top |
Relation with AD stages for MFSD2A |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| TCX | 5.55892983714342e-06 | 0.425129242012736 |
| PG | 1.31079217779488e-05 | 0.313582012447412 |
Top |
RelatedDrugs for MFSD2A |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for MFSD2A |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| MFSD2A | C0025958 | Microcephaly | 2 | CTD_human;GENOMICS_ENGLAND |
| MFSD2A | C1956147 | Microlissencephaly | 2 | CTD_human |
| MFSD2A | C3853041 | Severe Congenital Microcephaly | 2 | CTD_human |
| MFSD2A | C4225310 | MICROCEPHALY 15, PRIMARY, AUTOSOMAL RECESSIVE | 2 | CTD_human;UNIPROT |
| MFSD2A | C0009090 | Cluttering | 1 | CTD_human |
| MFSD2A | C0020796 | Profound Mental Retardation | 1 | CTD_human |
| MFSD2A | C0025363 | Mental Retardation, Psychosocial | 1 | CTD_human |
| MFSD2A | C0037822 | Speech Disorders | 1 | CTD_human |
| MFSD2A | C0233726 | Aprosodia | 1 | CTD_human |
| MFSD2A | C0431350 | Primary microcephaly | 1 | GENOMICS_ENGLAND |
| MFSD2A | C0751512 | Dysglossia | 1 | CTD_human |
| MFSD2A | C0751513 | Rhinolalia | 1 | CTD_human |
| MFSD2A | C0751514 | Verbal Fluency Disorders | 1 | CTD_human |
| MFSD2A | C0917816 | Mental deficiency | 1 | CTD_human |
| MFSD2A | C3495145 | Dyslalia | 1 | CTD_human |
| MFSD2A | C3714756 | Intellectual Disability | 1 | CTD_human;GENOMICS_ENGLAND |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|