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| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
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| The effects of the RNA editing to the stability of the RNA structures |
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Gene summary for HAPLN4 |
 Gene summary |
| Gene information | Gene symbol | HAPLN4 | Gene ID | 404037 |
| Gene name | hyaluronan and proteoglycan link protein 4 | |
| Synonyms | BRAL2 | |
| Cytomap | 19p13.11 | |
| Type of gene | protein-coding | |
| Description | hyaluronan and proteoglycan link protein 4brain link protein 2 | |
| Modification date | 20200313 | |
| UniProtAcc | Q86UW8, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
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RNA A-to-I events for HAPLN4 |
| 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). |
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| RNA editing frequencies across three data sets. |
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| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
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| RNA A-to-I editing events in AD. |
| ADediting_726139(19254855, -), ADediting_726140(19254878, -), ADediting_726141(19254885, -), ADediting_726142(19254886, -), ADediting_726143(19254902, -), ADediting_726144(19255286, -), ADediting_726145(19255302, -), |
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RNA editing positional annotations for HAPLN4 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_726139 | chr19_19254855_- | ncRNA_exonic |
| ADediting_726140 | chr19_19254878_- | ncRNA_exonic |
| ADediting_726141 | chr19_19254885_- | ncRNA_exonic |
| ADediting_726142 | chr19_19254886_- | ncRNA_exonic |
| ADediting_726143 | chr19_19254902_- | ncRNA_exonic |
| ADediting_726144 | chr19_19255286_- | ncRNA_exonic |
| ADediting_726145 | chr19_19255302_- | ncRNA_exonic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_726139 | chr19_19254855_- | SINE | Alu | Name=FRAM |
| ADediting_726140 | chr19_19254878_- | SINE | Alu | Name=FRAM |
| ADediting_726141 | chr19_19254885_- | SINE | Alu | Name=FRAM |
| ADediting_726142 | chr19_19254886_- | SINE | Alu | Name=FRAM |
| ADediting_726143 | chr19_19254902_- | SINE | Alu | Name=FRAM |
| ADediting_726144 | chr19_19255286_- | SINE | Alu | Name=AluSx1 |
| ADediting_726145 | chr19_19255302_- | SINE | Alu | Name=AluSx1 |
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RNA A-to-I editing events in the alternative splicing sites for HAPLN4 |
| 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 |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for HAPLN4 |
| 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. |
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| - 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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| - 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. |
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| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
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Protein coding region RNA A-to-I editings for HAPLN4 |
| - 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 HAPLN4 |
| RNA A-to-I editings in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. |
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| 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 |
| ADediting_726139 | chr19_19254855_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-1180-3p | chr19 | 19254852 | 19254858 | 7mer-m8 | 19254851 | 19254872 | 156 | -21.48 |
| ADediting_726142 | chr19_19254886_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-520g-3p | chr19 | 19254885 | 19254892 | 8mer-1a | 19254885 | 19254909 | 154 | -14.17 |
| ADediting_726142 | chr19_19254886_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-520h | chr19 | 19254885 | 19254892 | 8mer-1a | 19254885 | 19254907 | 154 | -14.17 |
| ADediting_726143 | chr19_19254902_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-10399-5p | chr19 | 19254898 | 19254904 | 7mer-m8 | 19254897 | 19254919 | 146 | -11.02 |
| ADediting_726143 | chr19_19254902_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6504-3p | chr19 | 19254898 | 19254904 | 7mer-m8 | 19254897 | 19254918 | 152 | -13.02 |
| ADediting_726143 | chr19_19254902_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-7151-3p | chr19 | 19254899 | 19254906 | 8mer-1a | 19254899 | 19254918 | 145 | -13.2 |
| ADediting_726144 | chr19_19255286_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-100-5p | chr19 | 19255283 | 19255289 | 7mer-m8 | 19255282 | 19255304 | 166 | -23.64 |
| ADediting_726144 | chr19_19255286_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-99a-5p | chr19 | 19255283 | 19255289 | 7mer-m8 | 19255282 | 19255304 | 162 | -23.78 |
| ADediting_726144 | chr19_19255286_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-99b-5p | chr19 | 19255283 | 19255289 | 7mer-m8 | 19255282 | 19255304 | 162 | -30.09 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6771-5p | chr19 | 19255300 | 19255307 | 8mer-1a | 19255300 | 19255321 | 151 | -24.79 |
| 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 |
| ADediting_726139 | chr19_19254855_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-1237-3p | chr19 | 19254850 | 19254856 | 7mer-m8 | 19254849 | 19254874 | 148 | -26.07 |
| ADediting_726139 | chr19_19254855_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-149-5p | chr19 | 19254853 | 19254860 | 8mer-1a | 19254853 | 19254877 | 151 | -26.84 |
| ADediting_726140 | chr19_19254878_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6813-3p | chr19 | 19254874 | 19254880 | 7mer-m8 | 19254873 | 19254893 | 149 | -15.44 |
| ADediting_726140 | chr19_19254878_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6843-3p | chr19 | 19254877 | 19254884 | 8mer-1a | 19254877 | 19254898 | 145 | -13.77 |
| ADediting_726140 | chr19_19254878_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6848-3p | chr19 | 19254877 | 19254884 | 8mer-1a | 19254877 | 19254895 | 152 | -16.52 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-30b-3p | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255322 | 155 | -18.05 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-3689a-3p | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255321 | 144 | -20.77 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-3689b-3p | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255321 | 144 | -20.82 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-3689c | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255321 | 144 | -20.82 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6779-5p | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255324 | 151 | -23.36 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-6780a-5p | chr19 | 19255301 | 19255308 | 8mer-1a | 19255301 | 19255324 | 144 | -20 |
| ADediting_726145 | chr19_19255302_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-887-5p | chr19 | 19255300 | 19255307 | 8mer-1a | 19255300 | 19255320 | 147 | -13.82 |
| 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_1097295 | chr3_85385762_+ | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-5688 | chr19 | 19256226 | 19256232 | 7mer-m8 | 19256225 | 19256248 | 148 | -16.69 |
| ADediting_1535951 | chr14_100874558_+ | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-337-3p | chr19 | 19257307 | 19257314 | 8mer-1a | 19257307 | 19257324 | 143 | -13.66 |
| ADediting_1535954 | chr14_101045974_+ | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-381-3p | chr19 | 19255612 | 19255619 | 8mer-1a | 19255612 | 19255632 | 150 | -21.38 |
| ADediting_286380 | chr11_79422188_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-5579-3p | chr19 | 19256304 | 19256310 | 7mer-m8 | 19256303 | 19256323 | 166 | -20.8 |
| 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 |
| ADediting_1337757 | chr7_5495852_- | ENSG00000187664.9 | ENST00000291481.8 | HAPLN4-201 | hsa-miR-589-3p | chr19 | 19255711 | 19255717 | 7mer-m8 | 19255710 | 19255732 | 145 | -19.59 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for HAPLN4 |
| - 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. |
| ENST00000291481.8 | protein_coding |  |  |
| 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 |
| ADediting_726139 | ENST00000291481.8 | chr19_19254855_- | 4243 | -1872.90 | -1869.90 | -1893.20 |
| ADediting_726140 | ENST00000291481.8 | chr19_19254878_- | 4220 | -1874.40 | -1869.90 | -1893.20 |
| ADediting_726141 | ENST00000291481.8 | chr19_19254885_- | 4213 | -1873.90 | -1869.90 | -1893.20 |
| ADediting_726142 | ENST00000291481.8 | chr19_19254886_- | 4212 | -1873.60 | -1869.90 | -1893.20 |
| ADediting_726143 | ENST00000291481.8 | chr19_19254902_- | 4196 | -1876.10 | -1869.90 | -1893.20 |
| ADediting_726144 | ENST00000291481.8 | chr19_19255286_- | 3812 | -1869.90 | -1869.90 | -1893.20 |
| ADediting_726145 | ENST00000291481.8 | chr19_19255302_- | 3796 | -1870.30 | -1869.90 | -1893.20 |
| RNA A-to-I editing in lncRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
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Relation with ADAR for HAPLN4 |
| 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.) |
| 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 | 4.04002663287223e-66 | 0.785375318496564 | 1.67104767404741e-89 | 0.854240210475487 | 0.0214993678789749 | 0.130548077346264 |
| AC | 0.000567206438794446 | 0.216490622595725 | 7.53086098370799e-07 | 0.306842508606043 | 0.722233589883038 | 0.022592581825913 |
| PCC | 2.59226443504202e-29 | 0.698826515607668 | 3.31587086626636e-51 | 0.836254013479775 | 0.550532260020792 | 0.0434595737041006 |
| CER | 1.3834821824635e-12 | 0.537103702911803 | 7.57490895837987e-09 | 0.450021840975137 | 0.01298538311774 | 0.202420685382342 |
| TCX | 1.23281681552571e-13 | 0.557689335346266 | 5.1574316061605e-26 | 0.727753352813027 | 0.00105968524529007 | -0.264763385832607 |
| FP | 4.64691974899112e-10 | 0.445456884177789 | 9.2368896305116e-11 | 0.461213609445134 | 0.672010851093554 | 0.0319514120575014 |
| IFG | 0.000188556173525724 | 0.679263011239112 | 5.12204439428753e-05 | 0.719061762195371 | 0.458373001780263 | 0.155355304037288 |
| PG | 0.001341933171604 | 0.233454255383215 | 8.35125041036728e-08 | 0.380640247821478 | 0.000455903527135051 | -0.254499500723296 |
| STG | 1.89212912058058e-12 | 0.675073764663223 | 3.85583267837469e-15 | 0.728852597384106 | 0.940680008048565 | 0.00824273666682976 |
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Relation with AD stages for HAPLN4 |
| 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. |
| PG | 1.87322185454029e-06 | -0.341258230073838 |
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RelatedDrugs for HAPLN4 |
| 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 |
| HAPLN4 | Q86UW8 | DB08818 | Hyaluronic acid | Hyaluronan and proteoglycan link protein 4 | small molecule | approved|vet_approved |
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RelatedDiseases for HAPLN4 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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