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lncRNA: ENSG00000238164

Summary for TNFRSF14-AS1

Gene summary

Gene information	Ensembl ID	ENSG00000238164
	Gene symbol	TNFRSF14-AS1
	Gene name	TNFRSF14 antisense RNA 1
	HGNC	26966
	Entrez ID
	Gene type	antisense
	Synonyms	TNFRSF14-AS1\|01p36.32\|RP3-395M20.8
	UniProtAcc

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Structure and expression level for TNFRSF14-AS1

AS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000238164	6.182612e+02	1.692248e+00	1.345260e-01	1.257934e+01	2.740000e-36	3.770000e-35	UP	KIRC
ENSG00000238164	1.985714e+03	3.005208e+00	4.025795e-01	7.464882e+00	8.340000e-14	7.330000e-13	UP	KICH
ENSG00000238164	5.628396e+02	1.123884e+00	2.143022e-01	5.244389e+00	1.570000e-07	7.800000e-07	UP	KIRP

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000238164	4.968759e-01	5.166610e-04	CHOL	1.017592e-03

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lncRNA-Protein interaction for TNFRSF14-AS1

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000238164	ENST00000443892	RP3-395M20.8	ENSG00000129566	TEP1	14.7	92.5586	Q99973	RBP	NA
ENSG00000238164	ENST00000448624	RP3-395M20.8	ENSG00000129566	TEP1	47.07	90.9046	Q99973	RBP	NA
ENSG00000238164	ENST00000432521	RP3-395M20.8	ENSG00000116350	SRSF4	46.24	90.2864	Q08170	RBP	NA

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lncRNA-DNA interaction for TNFRSF14-AS1

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

LRCH4,AGAP6,NISCH,WRAP73,ARHGEF1,IFFO1,GSDMB,MST1R,ZFYVE28,VAMP1,EPOR,FAM83E,MYO1F,GLI4,TRIM66,RBM39,TRMU,ACOT11,TNFAIP2,SLC26A6,CCDC28B,SLC9A1,LENG8,TMEM234,SH2B1,IRF3,ZMYND15,MAST3,CIRBP,STK11,C1orf159,MZF1,TTC31,MAPK8IP3,GAK,KAT8,SH3D21,MKNK1,UNKL,PLEKHH1,GBA2,CSAD,ACAP1,KIAA0895L,STX3,LMBR1L,ATAD3B,TBRG1,MUTYH,ACSS1,DCAF8,CNPPD1,RDH13,ULK3,PHYKPL,TMEM259,POFUT2,CCNL2,BICDL2,CAPN10,AP1G2,CENATAC,NPEPL1,FAM111A,CLK3,ANKRD10,SAFB2,VPS9D1,MSANTD2,THOC1,ANKMY1,RECQL5,TUBGCP6,INF2,CTSA,TMEM175,RIPK3,C6orf136,MAEA,DENND1C,INTS11,TNK2,ARHGAP27,RALGDS,ZBED5,SGSM3,CENPT,CYTH1,C1orf174,SLC37A1,NBEAL2,PARP12,OSBPL7,MTG1,TAZ,SPG7,KAT2A,SRSF4,TMCO4,C2CD2L,ACBD4,TSC2,PPIP5K1,CLCN6,OGT,PLA2G6,BAIAP2L2,RAB4B,ATG16L1,TAF1C,AP5Z1,COX19,CLK2,MAP3K12,MYO19,TRAPPC14,CHKB,METTL17,MGRN1,OPTN,FBXO44,ANKRD9,CAPN15,BBC3,CNKSR1,DHX58,OSGEP,EXD3,CLK1,PRPF39,NFKBID,MRNIP,RABL2A,FAM53B,ELMOD3,NDOR1,MOV10,PCED1A,ABTB1,OFD1,SRRM2,IWS1,DGLUCY,GSTM2,MED15,SLC25A29,MIB2,CHFR,PARP3,MTHFR,CC2D1B,ACIN1,TMC4,HDAC10,SDR39U1,HSH2D,HSF4,INO80E,RAB17,ENOSF1,ARGLU1,ANKS3,NOXA1,PGGHG,TAOK2,ANKRD49,TELO2,APBA3,WSB1,HECTD3,PRXL2B,ANKRA2,FNBP4,ANO9,MIIP,WASHC1,RSRP1,NEK8,MICALL2,KLC1,AGER,GPS2,TRIM52,USP40,NOL12,FAM160A2,CLASRP,DFFB,CUL9,MBD6,CDK11A,ZGPAT,ADCY6,STK36,MICAL1,KIFC2,EXOC3L4,TIA1,ZMAT1,HOOK2,ODF3B,ZNF83,GOLGA8B,ATG4B,HEMK1,MVP,CCDC191,LMNTD2,ROGDI,ABHD3,PLCB3,ALPK1,OGFR,ABCD4,PAN2,STAT6,GOLGA8A,NADK,PAM16,DGKQ,FBXL8,TCIRG1,SETD4,NEIL1,RBM6,SZT2,GIGYF1,RNPEPL1,FAM193B,GRIPAP1,IDUA,AARSD1,ABCA7,WWP2,DUSP28,SLC25A28,NOL3,UBA7,RBM5,NKTR,CRAMP1,MYL5,KLHL17,LUC7L,NLRP1,CASZ1,URGCP,PNN,C19orf71,TTLL3,TNFRSF14,HEXD,UCKL1,SLC25A45,SEMA4G,MROH1,XAF1,TRA2A,MRPS25,CASP1,UBXN11,EME2,NEURL4,HINFP,KHDC4,GALE,DCAF15,CROCC,LRP5L,APBB3,TSC1,ERCC5,TEP1,SIRT6,MAN2C1,DQX1,TPCN1,TMEM63A,AMT,FHOD1,ACAP3,WHAMM,CCDC57,TEPSIN,SIRT7

Exist in public source

lncRNA targets the promoter region and positively regulates the gene expression.

Only predicted by TDF

FBXO44,EXD3,KIAA1522,ZMAT1,HDAC10,KAT2A,HLA-C,C14orf159,TUBGCP6,LMNTD2,LMBR1L,DHX58,HSH2D,EPOR,RALGDS,FAM83E,HEMK1,ZMIZ2,CPSF3L,OSBPL7,FAM73B,PPIP5K1,ACAP1,BBC3,ZNF83,AP1G2,LRCH4,ZMYND15,GBA2,HIP1R,NADK,MYO7B,SDR39U1,KLHL17,MZF1,VPS9D1,NOL3,ANO9,ADCY6,INO80E,SRSF5,ANAPC4,ARHGEF1,SETD4,ACCS,GRIPAP1,CSAD,IRF3,APBB3,OGFR,HSF4,FAM111A,NOXA1,WHAMM,ACOT11,EXOC3L4,RBM6,EME2,CIRBP,CASP10

Exist in public source

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for TNFRSF14-AS1

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

lncRNA and exonskipping events positive correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	ORF mutation
ENSG00000238164	ENST00000452793	exon_skip_67074	chr11:406842-406993	-29.35	-0.2142	SIGIRR	ENST00000332725,ENST00000397632,ENST00000431843	Frame-shift

-lncRNA and exonskipping events are negatively correlated.

lncRNA and exonskipping events negative correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	LOF
ENSG00000238164	ENST00000452793	exon_skip_460899	chr6:85538837-85538864	-5.25	-0.8750	SNX14	ENST00000314673	In-frame

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

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Variants for TNFRSF14-AS1

RNA A-to-I editing events in lncRNA.

LncRNAediting ID

LncRNA Ensembl ID

Chromosome

Editing Position

Strand

Gene Type

Gene Name

Transcript ID

Transcript Type

Transcript Name

Edited-associated DElncRNAs in cancer.

LncRNA Ensembl ID

LncRNA Index

Cancer Type

Chr_Postion_Strand

AVE1

AVE2

log2FC

W-value

P-value

Adjc.p-value

Change

Correlation between RNA A-to-I editing events's frequecy and lncRNA expression.

LncRNA Ensembl ID

LncRNA Index

Correlation

P-value

Adjc.p-value

Cis-expression quantitative trait loci(cis-eQTL) of lncRNA.

LncRNA Ensembl ID

LncRNA Name

SNP info

Number of Positive corelated Cancer

Positive corelated Cancer

Number of Negative corelated Cancer

Negative corelated Cancer

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lncRNAs regulate the target genes through functioning as enhancers

lncRNA regulates differentially expressed genes by function as enhancer.

LncRNA Ensembl ID	PC Gene ID	PC Gene Name	Positive correlated cancers	Cancer with PC gene up-regulation	Cancer with PC gene down-regulation
ENSG00000238164	ENSG00000010295	IFFO1	ACC,CHOL,KIRC,LUAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000157873	TNFRSF14	ACC,BLCA,CHOL,COAD,DLBC,ESCA,KICH,KIRC,KIRP,LUAD,PAAD,PRAD,READ,SKCM,STAD,THYM,UVM	KICH,KIRC,KIRP
ENSG00000238164	ENSG00000167604	NFKBID	ACC,CHOL,KIRC,LUAD,PAAD	KIRC
ENSG00000238164	ENSG00000215252	GOLGA8B	ACC,BLCA,DLBC,KICH,KIRC,LUAD,PAAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000013441	CLK1	BLCA,CHOL,DLBC,KIRC,LUAD,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000073605	GSDMB	BLCA,CHOL,COAD,KIRC,LUAD,PAAD,READ	KIRC
ENSG00000238164	ENSG00000091592	NLRP1	BLCA,CHOL,DLBC,KIRC,LUAD	KIRC
ENSG00000238164	ENSG00000100288	CHKB	BLCA,CHOL,COAD,DLBC,KICH,KIRC,LUAD,PAAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000100429	HDAC10	BLCA,CHOL,COAD,KIRC,LUAD,PAAD,PRAD,READ	KIRC
ENSG00000238164	ENSG00000108773	KAT2A	BLCA,CHOL,KIRC,PAAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000113108	APBB3	BLCA,COAD,DLBC,KIRC,READ,SKCM,THYM,UVM	KIRC
ENSG00000238164	ENSG00000117616	RSRP1	BLCA,CHOL,ESCA,KIRC,LUAD,PAAD,PRAD,READ,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000127415	IDUA	BLCA,CHOL,ESCA,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000132522	GPS2	BLCA,CHOL,COAD,KIRC,LUAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000132530	XAF1	BLCA,COAD,KIRC,LUAD,PAAD	KIRC
ENSG00000238164	ENSG00000135722	FBXL8	BLCA,CHOL,COAD,DLBC,KIRC,LUAD,PAAD,PRAD,READ,SKCM	KIRC
ENSG00000238164	ENSG00000138834	MAPK8IP3	BLCA,CHOL,COAD,KIRC,LUAD,PAAD,PRAD,READ,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000139631	CSAD	BLCA,DLBC,KIRC,LUAD,PAAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000164877	MICALL2	BLCA,CHOL,COAD,DLBC,ESCA,KIRC,PAAD,READ,STAD,THYM,UVM	KIRC
ENSG00000238164	ENSG00000175265	GOLGA8A	BLCA,CHOL,KIRC,LUAD,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000175309	PHYKPL	BLCA,CHOL,COAD,ESCA,KIRC,PAAD,READ,UVM	KIRC
ENSG00000238164	ENSG00000177989	ODF3B	BLCA,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000178188	SH2B1	BLCA,CHOL,COAD,KICH,KIRC,LUAD,PAAD,PRAD,READ,SKCM,UVM	KICH
ENSG00000238164	ENSG00000184381	PLA2G6	BLCA,CHOL,COAD,KICH,KIRC,LUAD,PAAD,PRAD,READ,UVM	KIRC
ENSG00000238164	ENSG00000185101	ANO9	BLCA,CHOL,DLBC,ESCA,KIRC,PAAD,STAD,UVM	KIRC
ENSG00000238164	ENSG00000185215	TNFAIP2	BLCA,CHOL,DLBC,KIRC,PAAD,UVM	KIRC
ENSG00000238164	ENSG00000196123	KIAA0895L	BLCA,COAD,KIRC,LUAD,PRAD,READ,UVM	KIRC
ENSG00000238164	ENSG00000197774	EME2	BLCA,CHOL,COAD,KICH,KIRC,LUAD,PAAD,PRAD,READ,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000204149	AGAP6	BLCA,CHOL,ESCA,KIRC,PAAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000204305	AGER	BLCA,CHOL,COAD,DLBC,KIRC,PAAD,UVM	KIRC
ENSG00000238164	ENSG00000214021	TTLL3	BLCA,CHOL,DLBC,ESCA,KIRC,LUAD,PAAD,SKCM	KIRC
ENSG00000238164	ENSG00000215375	MYL5	BLCA,CHOL,COAD,KIRC,LUAD,PAAD,SKCM	KIRC
ENSG00000238164	ENSG00000217930	PAM16	BLCA,CHOL,KIRC,LUAD,PAAD,PRAD,SKCM	KIRC
ENSG00000238164	ENSG00000221978	CCNL2	BLCA,ESCA,KIRC,LUAD,PAAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000060491	OGFR	CHOL,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000072609	CHFR	CHOL,DLBC,KIRC,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000076928	ARHGEF1	CHOL,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000102125	TAZ	CHOL,DLBC,KIRC,LUAD,PAAD,PRAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000103326	CAPN15	CHOL,COAD,ESCA,KIRC,LUAD,PAAD,PRAD,READ,STAD	KIRC
ENSG00000238164	ENSG00000104859	CLASRP	CHOL,KIRC,LUAD,PAAD,SKCM	KIRC
ENSG00000238164	ENSG00000109046	WSB1	CHOL,KIRC,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000128298	BAIAP2L2	CHOL,COAD,ESCA,KIRC,PAAD,READ,STAD	KIRC
ENSG00000238164	ENSG00000135596	MICAL1	CHOL,COAD,DLBC,ESCA,KIRC,PAAD,READ,STAD	KIRC
ENSG00000238164	ENSG00000158062	UBXN11	CHOL,COAD,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000158201	ABHD3	CHOL,ESCA,KICH,KIRC,KIRP,PAAD,UVM	KICH
ENSG00000238164	ENSG00000160050	CCDC28B	CHOL,KICH,KIRC,KIRP,LUAD	KICH
ENSG00000238164	ENSG00000160072	ATAD3B	CHOL,COAD,ESCA,KIRC,PAAD,PRAD,SKCM,STAD,UVM	KIRC
ENSG00000238164	ENSG00000161010	MRNIP	CHOL,ESCA,KIRC,PAAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000167615	LENG8	CHOL,COAD,ESCA,KIRC,LUAD,PAAD,PRAD,READ,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000169592	INO80E	CHOL,COAD,KIRC,LUAD,PAAD,PRAD,READ	KIRC
ENSG00000238164	ENSG00000186166	CENATAC	CHOL,ESCA,KIRC,LUAD,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000189319	FAM53B	CHOL,COAD,KICH,KIRC,KIRP,READ	KICH
ENSG00000238164	ENSG00000090020	SLC9A1	COAD,DLBC,ESCA,KICH,KIRP,LUAD,PAAD,READ	KICH
ENSG00000238164	ENSG00000100068	LRP5L	COAD,ESCA,KICH,LUAD,PAAD,PRAD,UVM	KICH
ENSG00000238164	ENSG00000139636	LMBR1L	COAD,DLBC,KIRC,LUAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000160271	RALGDS	COAD,DLBC,KIRC,READ,UVM	KIRC
ENSG00000238164	ENSG00000167702	KIFC2	COAD,KIRC,PAAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000187961	KLHL17	COAD,KIRC,LUAD,PAAD,PRAD,UVM	KIRC
ENSG00000238164	ENSG00000205436	EXOC3L4	COAD,ESCA,KIRC,PAAD,READ,STAD	KIRC
ENSG00000238164	ENSG00000273899	NOL12	COAD,KICH,KIRC,LUAD,PAAD,PRAD	KIRC
ENSG00000238164	ENSG00000139625	MAP3K12	DLBC,KIRC,LUAD,SKCM,UVM	KIRC
ENSG00000238164	ENSG00000142102	PGGHG	DLBC,KIRC,PAAD,THYM,UVM	KIRC
ENSG00000238164	ENSG00000154930	ACSS1	DLBC,KICH,KIRP,LUAD,PRAD	KICH
ENSG00000238164	ENSG00000141497	ZMYND15	ESCA,KIRC,LUAD,PAAD,READ	KIRC

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lncRNAs regulate the target genes through recruiting transcript factors

LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.

LncRNA Ensembl ID

LncRNA ENST ID

PC Gene Name

PC Gene ID

PC ENST ID

nDG

Cancer with PC gene up-regulation

Cancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

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lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000238164.5	ENST00000449660.4	224	965	291
ENSG00000238164.5	ENST00000443892.2	145	1142	1579
ENSG00000238164.5	ENST00000416860.2	117	97	450
ENSG00000238164.5	ENST00000448624.2	308	1053	1979
ENSG00000238164.5	ENST00000432521.2	104	551	237
ENSG00000238164.5	ENST00000452793.1	217	878	225

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential