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Center for Computational Systems Medicine
Soverview

Gene summary

Soverview

RNA A-to-I events

Soverview

Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples

Soverview

Protein coding region RNA A-to-I editings

Soverview

The effects of the RNA editing to the miRNA binding sites

Soverview

The effects of the RNA editing to the stability of the RNA structures

Soverview

Relation with ADAR

Soverview

Relation with cancer stages

Soverview

Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: PRDM7 (CAeditome ID:11105)

Gene summary for PRDM7

check button Gene summary
Gene informationGene symbol

PRDM7

Gene ID

11105

Gene namePR/SET domain 7
SynonymsPFM4|ZNF910
Cytomap

16q24.3

Type of geneprotein-coding
Descriptionprobable histone-lysine N-methyltransferase PRDM7PR domain 7PR domain containing 7PR domain zinc finger protein 7PR-domain family protein 4
Modification date20210518
UniProtAcc

Q9NQW5

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
PRDM7

GO:0042800

Probable histone-lysine N-methyltransferase PRDM7

27129774

PRDM7

GO:0080182

Probable histone-lysine N-methyltransferase PRDM7

27129774


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RNA A-to-I events for PRDM7

check buttonRNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.
all structure

check button RNA editing frequencies across 33 cancers of gene: ENSG00000126856.12

check button RNA A-to-I editing events in Cancer.
CAediting_1146797(90063224, -), CAediting_1146798(90063228, -), CAediting_1146799(90063266, -), CAediting_1146800(90063274, -), CAediting_1146801(90063280, -), CAediting_1146802(90063306, -), CAediting_1146803(90063316, -), CAediting_1146804(90063326, -), CAediting_1146805(90063375, -), CAediting_1146806(90064456, -), CAediting_1146807(90064476, -), CAediting_1146808(90064479, -), CAediting_1146809(90064480, -), CAediting_1146810(90064551, -), CAediting_1146811(90064552, -), CAediting_1146812(90064562, -), CAediting_1146813(90064613, -), CAediting_1146814(90064627, -), CAediting_1146815(90064632, -), CAediting_1146816(90064756, -), CAediting_1146817(90064761, -), CAediting_1146818(90064791, -), CAediting_1146819(90064857, -), CAediting_1146820(90064907, -), CAediting_1146821(90064938, -), CAediting_1146822(90064946, -), CAediting_1146823(90064951, -), CAediting_1146824(90065210, -), CAediting_1146825(90065245, -), CAediting_1146826(90065253, -), CAediting_1146827(90065517, -), CAediting_1146828(90065518, -), CAediting_1146829(90065603, -), CAediting_1146830(90065623, -), CAediting_1146831(90065654, -), CAediting_1146832(90065689, -), CAediting_1146833(90067030, -), CAediting_1146834(90067041, -), CAediting_1146835(90067061, -), CAediting_1146836(90067062, -), CAediting_1146837(90067070, -), CAediting_1146838(90067071, -), CAediting_1146839(90067076, -), CAediting_1146840(90067089, -), CAediting_1146841(90067096, -), CAediting_1146842(90067097, -), CAediting_1146843(90067104, -), CAediting_1146844(90067134, -), CAediting_1146845(90067136, -), CAediting_1146846(90067141, -), CAediting_1146847(90067142, -), CAediting_1146848(90067143, -), CAediting_1146849(90067144, -), CAediting_1146850(90067145, -), CAediting_1146851(90067148, -), CAediting_1146852(90067159, -), CAediting_1146853(90067160, -), CAediting_1146854(90067163, -), CAediting_1146855(90067167, -), CAediting_1146856(90067169, -), CAediting_1146857(90067170, -), CAediting_1146858(90067179, -), CAediting_1146859(90067193, -), CAediting_1146860(90067198, -), CAediting_1146861(90067199, -), CAediting_1146862(90067203, -), CAediting_1146863(90067230, -), CAediting_1146864(90067238, -), CAediting_1146865(90067239, -), CAediting_1146866(90067255, -), CAediting_1146867(90067260, -), CAediting_1146868(90067667, -), CAediting_1146869(90067683, -), CAediting_1146870(90067688, -), CAediting_1146871(90068179, -), CAediting_1146872(90068238, -), CAediting_1146873(90068495, -), CAediting_1146874(90068559, -), CAediting_1146875(90068575, -), CAediting_1146876(90069797, -), CAediting_1146877(90069809, -), CAediting_1146878(90069810, -), CAediting_1146879(90069832, -), CAediting_1146880(90069836, -), CAediting_1146881(90069837, -), CAediting_1146882(90069849, -), CAediting_1146883(90069871, -), CAediting_1146884(90069874, -), CAediting_1146885(90069882, -), CAediting_1146886(90069888, -), CAediting_1146887(90069891, -), CAediting_1146888(90069897, -), CAediting_1146889(90069927, -), CAediting_1146890(90069931, -), CAediting_1146891(90069933, -), CAediting_1146892(90069943, -), CAediting_1146893(90069955, -), CAediting_1146894(90069972, -), CAediting_1146895(90069995, -), CAediting_1146896(90070003, -), CAediting_1146897(90070016, -), CAediting_1146898(90070033, -), CAediting_1146899(90091721, -),

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RNA editing positional annotations for PRDM7 using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_1146797chr16_90063224_-intronic
CAediting_1146798chr16_90063228_-intronic
CAediting_1146799chr16_90063266_-intronic
CAediting_1146800chr16_90063274_-intronic
CAediting_1146801chr16_90063280_-intronic
CAediting_1146802chr16_90063306_-intronic
CAediting_1146803chr16_90063316_-intronic
CAediting_1146804chr16_90063326_-intronic
CAediting_1146805chr16_90063375_-intronic
CAediting_1146806chr16_90064456_-intronic
CAediting_1146807chr16_90064476_-intronic
CAediting_1146808chr16_90064479_-intronic
CAediting_1146809chr16_90064480_-intronic
CAediting_1146810chr16_90064551_-intronic
CAediting_1146811chr16_90064552_-intronic
CAediting_1146812chr16_90064562_-intronic
CAediting_1146813chr16_90064613_-intronic
CAediting_1146814chr16_90064627_-intronic
CAediting_1146815chr16_90064632_-intronic
CAediting_1146816chr16_90064756_-intronic
CAediting_1146817chr16_90064761_-intronic
CAediting_1146818chr16_90064791_-intronic
CAediting_1146819chr16_90064857_-intronic
CAediting_1146820chr16_90064907_-intronic
CAediting_1146821chr16_90064938_-intronic
CAediting_1146822chr16_90064946_-intronic
CAediting_1146823chr16_90064951_-intronic
CAediting_1146824chr16_90065210_-intronic
CAediting_1146825chr16_90065245_-intronic
CAediting_1146826chr16_90065253_-intronic
CAediting_1146827chr16_90065517_-intronic
CAediting_1146828chr16_90065518_-intronic
CAediting_1146829chr16_90065603_-intronic
CAediting_1146830chr16_90065623_-intronic
CAediting_1146831chr16_90065654_-intronic
CAediting_1146832chr16_90065689_-intronic
CAediting_1146833chr16_90067030_-intronic
CAediting_1146834chr16_90067041_-intronic
CAediting_1146835chr16_90067061_-intronic
CAediting_1146836chr16_90067062_-intronic
CAediting_1146837chr16_90067070_-intronic
CAediting_1146838chr16_90067071_-intronic
CAediting_1146839chr16_90067076_-intronic
CAediting_1146840chr16_90067089_-intronic
CAediting_1146841chr16_90067096_-intronic
CAediting_1146842chr16_90067097_-intronic
CAediting_1146843chr16_90067104_-intronic
CAediting_1146844chr16_90067134_-intronic
CAediting_1146845chr16_90067136_-intronic
CAediting_1146846chr16_90067141_-intronic
CAediting_1146847chr16_90067142_-intronic
CAediting_1146848chr16_90067143_-intronic
CAediting_1146849chr16_90067144_-intronic
CAediting_1146850chr16_90067145_-intronic
CAediting_1146851chr16_90067148_-intronic
CAediting_1146852chr16_90067159_-intronic
CAediting_1146853chr16_90067160_-intronic
CAediting_1146854chr16_90067163_-intronic
CAediting_1146855chr16_90067167_-intronic
CAediting_1146856chr16_90067169_-intronic
CAediting_1146857chr16_90067170_-intronic
CAediting_1146858chr16_90067179_-intronic
CAediting_1146859chr16_90067193_-intronic
CAediting_1146860chr16_90067198_-intronic
CAediting_1146861chr16_90067199_-intronic
CAediting_1146862chr16_90067203_-intronic
CAediting_1146863chr16_90067230_-intronic
CAediting_1146864chr16_90067238_-intronic
CAediting_1146865chr16_90067239_-intronic
CAediting_1146866chr16_90067255_-intronic
CAediting_1146867chr16_90067260_-intronic
CAediting_1146868chr16_90067667_-intronic
CAediting_1146869chr16_90067683_-intronic
CAediting_1146870chr16_90067688_-intronic
CAediting_1146871chr16_90068179_-intronic
CAediting_1146872chr16_90068238_-intronic
CAediting_1146873chr16_90068495_-intronic
CAediting_1146874chr16_90068559_-intronic
CAediting_1146875chr16_90068575_-intronic
CAediting_1146876chr16_90069797_-intronic
CAediting_1146877chr16_90069809_-intronic
CAediting_1146878chr16_90069810_-intronic
CAediting_1146879chr16_90069832_-intronic
CAediting_1146880chr16_90069836_-intronic
CAediting_1146881chr16_90069837_-intronic
CAediting_1146882chr16_90069849_-intronic
CAediting_1146883chr16_90069871_-intronic
CAediting_1146884chr16_90069874_-intronic
CAediting_1146885chr16_90069882_-intronic
CAediting_1146886chr16_90069888_-intronic
CAediting_1146887chr16_90069891_-intronic
CAediting_1146888chr16_90069897_-intronic
CAediting_1146889chr16_90069927_-intronic
CAediting_1146890chr16_90069931_-intronic
CAediting_1146891chr16_90069933_-intronic
CAediting_1146892chr16_90069943_-intronic
CAediting_1146893chr16_90069955_-intronic
CAediting_1146894chr16_90069972_-intronic
CAediting_1146895chr16_90069995_-UTR3
CAediting_1146896chr16_90070003_-UTR3
CAediting_1146897chr16_90070016_-exonic
CAediting_1146898chr16_90070033_-exonic
CAediting_1146899chr16_90091721_-ncRNA_exonic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_1146797chr16_90063224_-SINEAluAluSz6
CAediting_1146798chr16_90063228_-SINEAluAluSz6
CAediting_1146799chr16_90063266_-SINEAluAluSz6
CAediting_1146800chr16_90063274_-SINEAluAluSz6
CAediting_1146801chr16_90063280_-SINEAluAluSz6
CAediting_1146802chr16_90063306_-SINEAluAluSz6
CAediting_1146803chr16_90063316_-SINEAluAluSz6
CAediting_1146804chr16_90063326_-SINEAluAluSz6
CAediting_1146805chr16_90063375_-SINEAluAluSz6
CAediting_1146806chr16_90064456_-SINEAluAluSz
CAediting_1146807chr16_90064476_-SINEAluAluSz
CAediting_1146808chr16_90064479_-SINEAluAluSz
CAediting_1146809chr16_90064480_-SINEAluAluSz
CAediting_1146810chr16_90064551_-SINEAluAluSz
CAediting_1146811chr16_90064552_-SINEAluAluSz
CAediting_1146812chr16_90064562_-SINEAluAluSz
CAediting_1146813chr16_90064613_-SINEAluAluSz
CAediting_1146814chr16_90064627_-SINEAluAluSz
CAediting_1146815chr16_90064632_-SINEAluAluSz
CAediting_1146816chr16_90064756_-SINEAluAluSx1
CAediting_1146817chr16_90064761_-SINEAluAluSx1
CAediting_1146818chr16_90064791_-SINEAluAluSx1
CAediting_1146819chr16_90064857_-SINEAluAluSx1
CAediting_1146820chr16_90064907_-SINEAluAluSx1
CAediting_1146821chr16_90064938_-SINEAluAluSx1
CAediting_1146822chr16_90064946_-SINEAluAluSx1
CAediting_1146823chr16_90064951_-SINEAluAluSx1
CAediting_1146824chr16_90065210_-SINEAluAluSq
CAediting_1146825chr16_90065245_-SINEAluAluSq
CAediting_1146826chr16_90065253_-SINEAluAluSq
CAediting_1146827chr16_90065517_-SINEAluAluJb
CAediting_1146828chr16_90065518_-SINEAluAluJb
CAediting_1146829chr16_90065603_-SINEAluAluJb
CAediting_1146830chr16_90065623_-SINEAluAluJb
CAediting_1146831chr16_90065654_-SINEAluAluJb
CAediting_1146832chr16_90065689_-SINEAluAluJb
CAediting_1146833chr16_90067030_-SINEAluAluSx
CAediting_1146834chr16_90067041_-SINEAluAluSx
CAediting_1146835chr16_90067061_-SINEAluAluSx
CAediting_1146836chr16_90067062_-SINEAluAluSx
CAediting_1146837chr16_90067070_-SINEAluAluSx
CAediting_1146838chr16_90067071_-SINEAluAluSx
CAediting_1146839chr16_90067076_-SINEAluAluSx
CAediting_1146840chr16_90067089_-SINEAluAluSx
CAediting_1146841chr16_90067096_-SINEAluAluSx
CAediting_1146842chr16_90067097_-SINEAluAluSx
CAediting_1146843chr16_90067104_-SINEAluAluSx
CAediting_1146844chr16_90067134_-SINEAluAluSx
CAediting_1146845chr16_90067136_-SINEAluAluSx
CAediting_1146846chr16_90067141_-SINEAluAluSx
CAediting_1146847chr16_90067142_-SINEAluAluSx
CAediting_1146848chr16_90067143_-SINEAluAluSx
CAediting_1146849chr16_90067144_-SINEAluAluSx
CAediting_1146850chr16_90067145_-SINEAluAluSx
CAediting_1146851chr16_90067148_-SINEAluAluSx
CAediting_1146852chr16_90067159_-SINEAluAluSx
CAediting_1146853chr16_90067160_-SINEAluAluSx
CAediting_1146854chr16_90067163_-SINEAluAluSx
CAediting_1146855chr16_90067167_-SINEAluAluSx
CAediting_1146856chr16_90067169_-SINEAluAluSx
CAediting_1146857chr16_90067170_-SINEAluAluSx
CAediting_1146858chr16_90067179_-SINEAluAluSx
CAediting_1146859chr16_90067193_-SINEAluAluSx
CAediting_1146860chr16_90067198_-SINEAluAluSx
CAediting_1146861chr16_90067199_-SINEAluAluSx
CAediting_1146862chr16_90067203_-SINEAluAluSx
CAediting_1146863chr16_90067230_-SINEAluAluSx
CAediting_1146864chr16_90067238_-SINEAluAluSx
CAediting_1146865chr16_90067239_-SINEAluAluSx
CAediting_1146866chr16_90067255_-SINEAluAluSx
CAediting_1146867chr16_90067260_-SINEAluAluSx
CAediting_1146868chr16_90067667_-SINEAluAluY
CAediting_1146869chr16_90067683_-SINEAluAluY
CAediting_1146870chr16_90067688_-SINEAluAluY
CAediting_1146871chr16_90068179_-SINEAluAluSx1
CAediting_1146872chr16_90068238_-SINEAluAluSx1
CAediting_1146873chr16_90068495_-SINEAluAluYm1
CAediting_1146874chr16_90068559_-SINEAluAluYm1
CAediting_1146875chr16_90068575_-SINEAluAluYm1
CAediting_1146876chr16_90069797_-SINEAluAluSq2
CAediting_1146877chr16_90069809_-SINEAluAluSq2
CAediting_1146878chr16_90069810_-SINEAluAluSq2
CAediting_1146879chr16_90069832_-SINEAluAluSq2
CAediting_1146880chr16_90069836_-SINEAluAluSq2
CAediting_1146881chr16_90069837_-SINEAluAluSq2
CAediting_1146882chr16_90069849_-SINEAluAluSq2
CAediting_1146883chr16_90069871_-SINEAluAluSq2
CAediting_1146884chr16_90069874_-SINEAluAluSq2
CAediting_1146885chr16_90069882_-SINEAluAluSq2
CAediting_1146886chr16_90069888_-SINEAluAluSq2
CAediting_1146887chr16_90069891_-SINEAluAluSq2
CAediting_1146888chr16_90069897_-SINEAluAluSq2
CAediting_1146889chr16_90069927_-SINEAluAluSq2
CAediting_1146890chr16_90069931_-SINEAluAluSq2
CAediting_1146891chr16_90069933_-SINEAluAluSq2
CAediting_1146892chr16_90069943_-SINEAluAluSq2
CAediting_1146893chr16_90069955_-SINEAluAluSq2
CAediting_1146894chr16_90069972_-SINEAluAluSq2
CAediting_1146895chr16_90069995_-SINEAluAluSq2
CAediting_1146896chr16_90070003_-SINEAluAluSq2
CAediting_1146897chr16_90070016_-SINEAluAluSq2
CAediting_1146898chr16_90070033_-SINEAluAluSq2
CAediting_1146899chr16_90091721_-LTRERVL-MaLRTHE1B

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RNA A-to-I editing events in the alternative splicing sites for PRDM7

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeCAeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength
ESCAediting_1146894chr16_90069972_-90069971:900699795SS0+5iAGGTTCCAG-16.99AGGTTCCGG-9.47
MEX_2CAediting_1146894chr16_90069972_-90069971:900699795SS0+5iAGGTTCCAG-16.99AGGTTCCGG-9.47

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000126856.12.PRDM7.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000126856.12.PRDM7.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for PRDM7

check button Differential gene expressions between RNA A-to-I edited and non-edited tumor samples.
* The grey color means N/A.
boxplot

check button Correlation between RNA A-to-I editing and gene expression.
boxplot

check button - 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 PRDM7

check button- 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 PRDM7

**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.

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_846604chr11_93733708_-ENSG00000126856.12ENST00000564210hsa-miR-1304-3p90062423900624297mer-m89006242290062444141-15.81

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for PRDM7

check button - RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.
ENSTENST typeRNA structure without RNA A-to-I editing.RNA structure with RNA A-to-I editing.

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for PRDM7

check button Correlation between ADAR gene expression and RNA editing frequency
CancerCAeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
SKCMCAediting_1146864chr16_90067238_-0.0007407377380321370.44920337393747....
SKCMCAediting_1146887chr16_90069891_-..0.02605884408800050.314627802583597..
SKCMCAediting_1146898chr16_90070033_-1.72984427121603e-060.549917609340487....

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Relation with cancer stages for PRDM7

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
SKCMpathologic_stageCAediting_1146841chr16_90067096_-0.005061412494970620.366390526624557
SKCMpathologic_stageCAediting_1146856chr16_90067169_-0.02004654183687460.31004687203571

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Relation with survival for PRDM7

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR
SKCMCAediting_1146861chr16_90067199_-0.01092899353100560.01106330.00464555

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RelatedDrugs for PRDM7

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for PRDM7

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource