Basic Information:

  VIRBase ID:  

HHID00038915

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      LINC00672:  NR_038847          TARDBP:  NM_007375     

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Interactor Information:

	Interactor1	Interactor2
Symbol	LINC00672	TARDBP
miRBase Accession/Entrez ID	100505576	23435
Organism	Homo sapiens	Homo sapiens
Category	lncRNA	mRNA
Alias	-	ALS10//TDP-43

RNA Editing:

Resource	Symbol	Editing Position
Lncediting	LINC00672	chr17: 37084302     chr17: 37084137

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	TARDBP	chr1:11080912(+) A-I      intronic chr1:11080941(+) A-I      intronic chr1:11077850(+) A-I      intronic chr1:11080785(+) A-I      intronic chr1:11081597(+) A-I      intronic chr1:11081714(+) A-I      intronic chr1:11080762(+) A-I      intronic chr1:11081698(+) A-I      intronic chr1:11075901(+) A-I      intronic chr1:11081700(+) A-I      intronic chr1:11081883(+) A-I      intronic chr1:11081775(+) A-I      intronic chr1:11080761(+) A-I      intronic chr1:11075642(+) A-I      intronic chr1:11075929(+) A-I      intronic chr1:11075352(+) A-I      intronic chr1:11081332(+) A-I      intronic chr1:11081716(+) A-I      intronic chr1:11081460(+) A-I      intronic chr1:11077904(+) A-I      intronic chr1:11077855(+) A-I      intronic chr1:11076134(+) A-I      intronic chr1:11080873(+) A-I      intronic chr1:11076435(+) A-I      intronic chr1:11081921(+) A-I      intronic chr1:11074718(+) A-I      intronic chr1:11081474(+) A-I      intronic chr1:11081450(+) A-I      intronic chr1:11081609(+) A-I      intronic chr1:11081710(+) A-I      intronic chr1:11081675(+) A-I      intronic chr1:11081275(+) A-I      intronic chr1:11081578(+) A-I      intronic chr1:11081260(+) A-I      intronic chr1:11081942(+) A-I      intronic chr1:11081313(+) A-I      intronic chr1:11080860(+) A-I      intronic chr1:11075422(+) A-I      intronic chr1:11081950(+) A-I      intronic chr1:11080786(+) A-I      intronic chr1:11080708(+) A-I      intronic chr1:11075904(+) A-I      intronic chr1:11080824(+) A-I      intronic chr1:11074983(+) A-I      intronic chr1:11081784(+) A-I      intronic chr1:11080928(+) A-I      intronic chr1:11077849(+) A-I      intronic chr1:11081387(+) A-I      intronic chr1:11080711(+) A-I      intronic chr1:11081472(+) A-I      intronic chr1:11081934(+) A-I      intronic chr1:11081936(+) A-I      intronic chr1:11075108(+) A-I      intronic chr1:11080883(+) A-I      intronic chr1:11081407(+) A-I      intronic chr1:11075103(+) A-I      intronic chr1:11081888(+) A-I      intronic chr1:11080892(+) A-I      intronic chr1:11080946(+) A-I      intronic chr1:11080926(+) A-I      intronic chr1:11080787(+) A-I      intronic chr1:11076095(+) A-I      intronic chr1:11081948(+) A-I      intronic chr1:11081296(+) A-I      intronic chr1:11081282(+) A-I      intronic chr1:11076094(+) A-I      intronic chr1:11075502(+) A-I      intronic chr1:11075486(+) A-I      intronic chr1:11080917(+) A-I      intronic chr1:11081337(+) A-I      intronic chr1:11081300(+) A-I      intronic chr1:11081667(+) A-I      intronic chr1:11080719(+) A-I      intronic chr1:11081378(+) A-I      intronic chr1:11080716(+) A-I      intronic chr1:11081849(+) A-I      intronic chr1:11080821(+) A-I      intronic chr1:11081596(+) A-I      intronic chr1:11081295(+) A-I      intronic chr1:11081514(+) A-I      intronic chr1:11081325(+) A-I      intronic chr1:11075939(+) A-I      intronic chr1:11081587(+) A-I      intronic chr1:11081724(+) A-I      intronic chr1:11074883(+) A-I      intronic chr1:11081381(+) A-I      intronic chr1:11081459(+) A-I      intronic chr1:11081711(+) A-I      intronic chr1:11081791(+) A-I      intronic chr1:11080916(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	TARDBP	chr1:11081578(+) A-I intron -    15258596 chr1:11081942(+) A-I intron -    15258596   //16100382 chr1:11081948(+) A-I intron -    15258596   //16100382 chr1:11080926(+) A-I intron -    21960545 chr1:11081791(+) A-I intron -    21960545 chr1:11073509(+) A-T intron -    22484847 chr1:11074770(+) T-G intron -    22484847 chr1:11075422(+) A-G intron -    22484847 chr1:11075486(+) A-G intron -    22484847 chr1:11075904(+) A-G intron -    22484847 chr1:11075939(+) A-G intron -    22484847 chr1:11076094(+) A-G intron -    22484847 chr1:11076095(+) A-G intron -    22484847 chr1:11076134(+) A-G intron -    22484847 chr1:11080711(+) A-G intron -    22484847 chr1:11080787(+) A-G intron -    22484847 chr1:11080805(+) T-A intron -    22484847 chr1:11080916(+) A-G intron -    22484847 chr1:11080917(+) A-G intron -    22484847 chr1:11080926(+) A-G intron -    22484847 chr1:11080928(+) A-G intron -    22484847 chr1:11081275(+) A-G intron -    22484847 chr1:11081282(+) A-G intron -    22484847 chr1:11081296(+) A-G intron -    22484847 chr1:11081325(+) A-G intron -    22484847 chr1:11081337(+) A-G intron -    22484847 chr1:11081378(+) A-G intron -    22484847 chr1:11081387(+) A-G intron -    22484847 chr1:11081450(+) A-G intron -    22484847 chr1:11081474(+) A-G intron -    22484847 chr1:11081514(+) A-G intron -    22484847 chr1:11081554(+) T-C intron -    22484847 chr1:11081667(+) A-G intron -    22484847 chr1:11081711(+) A-G intron -    22484847 chr1:11081791(+) A-G intron -    22484847 chr1:11081921(+) A-G intron -    22484847 chr1:11081942(+) A-G intron -    22484847 chr1:11081948(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	LINC00672	chr17:37082733-37082734(+) m6A exon       25456834 chr17:37082754-37082755(+) m6A exon       25456834 chr17:37082811-37082812(+) m6A exon       25456834 chr17:37082828-37082829(+) m6A exon       25456834 chr17:37082877-37082878(+) m6A exon       - chr17:37082896-37082897(+) m6A exon       - chr17:37082919-37082920(+) m6A exon       -
	TARDBP	chr1:11072458-11072459(+) m6A 5'UTR       24981863 chr1:11078807-11078808(+) m6A 3'UTR//CDS//exon       27773535 chr1:11078855-11078856(+) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:11078914-11078915(+) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:11080543-11080544(+) m6A 3'UTR//CDS//intron       24981863//27773535 chr1:11082205-11082206(+) m6A 3'UTR//CDS       27773535 chr1:11082248-11082249(+) m6A 3'UTR//CDS//intron       27773535 chr1:11082269-11082270(+) m6A 3'UTR//CDS//intron       24981863//27773535 chr1:11082367-11082368(+) m6A 3'UTR//CDS//intron       24981863 chr1:11082400-11082401(+) m6A 3'UTR//CDS//intron       24981863 chr1:11082499-11082500(+) m6A 3'UTR//CDS//intron       - chr1:11082529-11082530(+) m6A 3'UTR//CDS//intron       - chr1:11082556-11082557(+) m6A 3'UTR//CDS//intron       - chr1:11082711-11082712(+) m6A 3'UTR//intron       24981863 chr1:11082942-11082943(+) m6A 3'UTR//exon//intron       24981863//22575960//22608085 chr1:11082965-11082966(+) m6A 3'UTR//exon//intron       24981863//22575960//22608085 chr1:11083011-11083012(+) Y 3'UTR//intron       26075521 chr1:11083020-11083021(+) m6A 3'UTR//exon//intron       24981863//22575960//22608085 chr1:11083057-11083058(+) m6A 3'UTR//exon//intron       24981863//22575960//22608085 chr1:11083070-11083071(+) m6A 3'UTR//exon//intron       24981863//22575960//22608085 chr1:11083101-11083102(+) m6A 3'UTR//exon//intron       24981863//22575960 chr1:11083465-11083466(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr1:11083482-11083483(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr1:11083491-11083492(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr1:11083568-11083569(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr1:11083696-11083697(+) m6A 3'UTR//exon//intron       24284625//24209618//24981863//27773535//22575960//22608085 chr1:11083716-11083717(+) m6A 3'UTR//exon//intron       24284625//24209618//24981863//27773535//22608085 chr1:11083871-11083872(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//27773535//22608085 chr1:11083892-11083893(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22608085 chr1:11083898-11083899(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22608085 chr1:11083927-11083928(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22608085 chr1:11084805-11084806(+) m6A 3'UTR//intron       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	LINC00672	Exosome Blood     -
	TARDBP	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Membrane K562 cells     - Ribosome Colon cancer cells     24393600

Related Drug Information:

Resource	Symbol	Drug Name	PubChem ID
RNAactDrug	LINC00672	1-O-(3-O-beta-D-Glucopyranosylbutyryl)pancratistatin       398556 (9-Hydroxy-10-oxo-10H-indeno[1,2-b]indol-5-yl)-acetic acid       24205927 Nutlin-3       216345 (S)-N-((S)-1-Cyclohexyl-2-oxo-2-((3aR,7aS)-6-phenethyloctahydro-1H-pyrrolo[2,3-c]pyridin-1-yl)ethyl)-2-(methylamino)propanamide       11503417 benzenethiol, methyl-, mercury(2+) salt       -

Interaction Network (The top 100 interactions):

Interactor1: LINC00672
Interactor2: TARDBP

Evidence Support:

Weak-Evidence	RNA-Seq
Prediction-Evidence	DIANA
Support Database	ViRBase

References:

PMID	31199512	Target region	None
Source	ViRBase	Interactor1 expression	None
Tissue or cell line	293 cells//C2089 cells//C22 cells	Interactor2 expression	None
Description	Figure 5 Target genes of the EBV-related lncRNAs. Online software program search results demonstrated that four lncRNAs target two common genes, FUS and U2AF65; three lncRNAs commonly target UPF1; and five lncRNAs target one common gene, eIF4AIII, as indicated in the red boxes. Interactions were also predicted between lncRNAs and miRNAs.