Home

Download

Statistics

Landscape

Help

Contact

lncRNA: ENSG00000278948

Summary for RP5-1039K5.12

Gene summary

Gene information	Ensembl ID	ENSG00000278948
	Gene symbol	RP5-1039K5.12
	Gene name
	HGNC
	Entrez ID
	Gene type	TEC
	Synonyms
	UniProtAcc

Top

Structure and expression level for RP5-1039K5.12

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
ENSG00000278948	1.812412e+02	1.301416e+00	1.413069e-01	9.209858e+00	3.270000e-20	5.420000e-19	UP	KICH
ENSG00000278948	2.245296e+02	-1.016644e+00	2.158107e-01	-4.710815e+00	2.470000e-06	1.990000e-05	DOWN	BLCA
ENSG00000278948	2.644525e+02	-2.032209e+00	3.899097e-01	-5.212000e+00	1.870000e-07	6.820000e-06	DOWN	ESCA
ENSG00000278948	1.476229e+02	-1.131064e+00	9.086033e-02	-1.244838e+01	1.430000e-35	2.130000e-33	DOWN	PRAD
ENSG00000278948	1.317020e+02	-1.010913e+00	9.828144e-02	-1.028590e+01	8.160000e-25	6.600000e-24	DOWN	BRCA

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000278948	-3.543618e-01	6.990599e-06	ESCA	6.992850e-04
ENSG00000278948	4.817371e-01	1.756736e-06	KICH	4.688506e-06
ENSG00000278948	-3.868948e-01	4.067224e-21	PRAD	1.174710e-19

Top

lncRNA-Protein interaction for RP5-1039K5.12

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
ENSG00000278948	ENST00000624344	RP5-1039K5.12	ENSG00000124177	CHD6	46.95	93.0175	Q8TD26	Epi	NA

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

Top

lncRNA-DNA interaction for RP5-1039K5.12

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

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

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

Top

lncRNA-RNA interaction for RP5-1039K5.12

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

Only predicted by lncTar

PYM1,NDUFC1,MICU1,MRPL44,PTGES3,KLHDC9,COQ5,DNAJC7,PLS1,NECAP2,ANG,SLC50A1,MCCC2,UTP18,PDZD11,SDHB,MACROH2A1,ETFA,LAMTOR5,MRPL58,GLRX2,PNKD,OSTC,ACP1,MPV17,PPIB,DECR1,COX5A,PSMA4,PSME1,TMCO1,DDX39A,DDX41,DOK1,PSMB8,TLCD1,GLA,MAIP1,SUMO2,MRPS15,EEF1E1,TPM3,PRR13,ARRB2,GON7,COX6A1,PPIA,CALM2,RAN,SDCBP,RPA3,PTRH2,SSBP1,GPI,UBB,RABGGTB,UQCRH,PARK7,PTMA,SNRPC,AUP1,TRAF4,CIAO2A,SRP14,PPA1

Exist in public source

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
ENSG00000278948	ENST00000624344	exon_skip_75223	chr11:72012400-72012442	-9.03	-0.6946	NUMA1	ENST00000393695	In-frame
ENSG00000278948	ENST00000624344	exon_skip_104174	chr13:79353152-79353224	-10.34	-0.1723	RBM26	ENST00000438737	In-frame
ENSG00000278948	ENST00000624344	exon_skip_335378	chr2:237751199-237751271	-9.40	-0.1621	LRRFIP1	ENST00000392000	In-frame
ENSG00000278948	ENST00000624344	exon_skip_507736	chr9:129915965-129915980	-5.39	-0.5989	FNBP1	ENST00000446176	In-frame
ENSG00000278948	ENST00000624344	exon_skip_382356	chr3:37091466-37091538	-12.14	-0.2428	LRRFIP2	ENST00000336686	In-frame
ENSG00000278948	ENST00000624344	exon_skip_444897	chr5:141588223-141588250	-9.55	-1.9100	DIAPH1	ENST00000389054	In-frame
ENSG00000278948	ENST00000624344	exon_skip_48296	chr10:26755654-26755741	-14.15	-0.1747	ABI1	ENST00000376142	In-frame
ENSG00000278948	ENST00000624344	exon_skip_114227	chr14:73316389-73316422	-11.26	-0.4021	NUMB	ENST00000355058,ENST00000555238	In-frame
ENSG00000278948	ENST00000624344	exon_skip_96112	chr12:109945259-109945349	-22.07	-0.5016	GIT2	ENST00000355312	In-frame

-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
ENSG00000278948	ENST00000624344	exon_skip_153096	chr17:44074968-44075087	-17.54	-0.1499	G6PC3	ENST00000269097	Frame-shift

lncRNA targets by miRNA.

LncRNA Ensembl ID	miRNA ID	LncRNA ENST ID	Binding site in lncRNA	Score	Energy	Align Len	Public source
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944522-37944618	189.00	-81.55	95	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944753-37944838	167.00	-81.43	81	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943287-37943371	166.00	-73.55	81	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943714-37943798	160.00	-64.12	85	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944284-37944373	155.00	-67.30	89	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943058-37943153	154.00	-79.30	92	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944170-37944249	154.00	-62.06	83	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943870-37943953	152.00	-73.18	84	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943450-37943544	149.00	-71.39	91	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943962-37944056	149.00	-86.17	92	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944071-37944148	148.00	-77.23	82	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37944374-37944464	146.00	-72.60	90	NA
ENSG00000278948	hsa-mir-425	ENST00000624344	chr22:37943578-37943669	142.00	-77.24	90	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943837-37943962	223.00	-99.72	114	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37944090-37944211	215.00	-112.14	115	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943138-37943239	192.00	-89.15	100	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943605-37943709	192.00	-85.35	115	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37944375-37944502	184.00	-104.04	124	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943981-37944103	173.00	-113.77	123	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37944489-37944603	173.00	-106.88	109	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943741-37943854	172.00	-82.63	110	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943255-37943359	170.00	-97.07	104	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943423-37943548	170.00	-92.49	119	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37944682-37944788	163.00	-103.68	111	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37943051-37943146	158.00	-91.62	101	NA
ENSG00000278948	hsa-mir-199b	ENST00000624344	chr22:37944221-37944333	150.00	-97.00	115	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943982-37944056	186.00	-75.52	74	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943196-37943257	180.00	-70.21	70	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943051-37943116	173.00	-63.45	65	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943328-37943408	172.00	-65.74	79	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37944113-37944190	171.00	-69.64	75	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943859-37943935	166.00	-60.78	69	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943400-37943470	164.00	-57.68	74	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37943550-37943628	162.00	-68.74	75	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37944253-37944320	162.00	-63.90	72	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37944783-37944853	149.00	-69.57	75	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37944630-37944701	144.00	-68.01	72	NA
ENSG00000278948	hsa-mir-146b	ENST00000624344	chr22:37944053-37944121	141.00	-75.32	72	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943996-37944107	237.00	-117.77	116	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944774-37944892	225.00	-108.04	115	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943178-37943288	207.00	-105.96	110	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943512-37943614	203.00	-91.12	102	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944557-37944669	190.00	-100.33	100	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944414-37944533	189.00	-103.65	115	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943876-37943990	188.00	-104.73	110	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944122-37944249	173.00	-104.39	114	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943666-37943777	162.00	-76.06	110	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943311-37943422	161.00	-95.50	112	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37943071-37943188	155.00	-92.62	116	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944657-37944777	152.00	-103.41	118	NA
ENSG00000278948	hsa-mir-766	ENST00000624344	chr22:37944269-37944379	150.00	-101.96	114	NA

Top

Variants for RP5-1039K5.12

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

Top

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

Top

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

Top

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

Top

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	dG	nDG	Cancer with PC gene up-regulation	Cancer with PC gene Down-regulation
ENSG00000278948	ENST00000624344	MACROH2A1	ENSG00000113648	ENST00000423969	-0.1628	266	BRCA	-
ENSG00000278948	ENST00000624344	MACROH2A1	ENSG00000113648	ENST00000510038	-0.6621	145	BRCA	-
ENSG00000278948	ENST00000624344	MCCC2	ENSG00000131844	ENST00000509358	-0.3086	668	PRAD	-
ENSG00000278948	ENST00000624344	SLC50A1	ENSG00000169241	ENST00000484157	-0.2189	1733	BLCA,BRCA	-
ENSG00000278948	ENST00000624344	PLS1	ENSG00000120756	ENST00000497002	-0.2948	995	-	KICH
ENSG00000278948	ENST00000624344	EEF1E1	ENSG00000124802	ENST00000429723	-0.1344	129	-	KICH
ENSG00000278948	ENST00000624344	EEF1E1	ENSG00000124802	ENST00000502429	-0.1322	1624	-	KICH
ENSG00000278948	ENST00000624344	KLHDC9	ENSG00000162755	ENST00000368011	-0.1126	74	BRCA	KICH
ENSG00000278948	ENST00000624344	ANG	ENSG00000214274	ENST00000336811	-0.1559	1635	-	KICH
ENSG00000278948	ENST00000624344	ANG	ENSG00000214274	ENST00000397990	-0.1559	1635	-	KICH
ENSG00000278948	ENST00000624344	RPA3	ENSG00000106399	ENST00000406109	-0.1307	556	ESCA	-
ENSG00000278948	ENST00000624344	RPA3	ENSG00000106399	ENST00000396682	-0.2124	910	ESCA	-
ENSG00000278948	ENST00000624344	RPA3	ENSG00000106399	ENST00000401447	-0.3267	737	ESCA	-
ENSG00000278948	ENST00000624344	DDX39A	ENSG00000123136	ENST00000242776	-0.2485	893	BLCA,ESCA,BRCA	-
ENSG00000278948	ENST00000624344	TLCD1	ENSG00000160606	ENST00000292090	-0.1321	921	BLCA,PRAD,BRCA	-
ENSG00000278948	ENST00000624344	TLCD1	ENSG00000160606	ENST00000394933	-0.2646	1309	BLCA,PRAD,BRCA	-

Top

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
ENSG00000278948	RP5-1039K5.12,hsa-mir-766,C22orf23	LGG,UVM,GBM,SARC,THYM
ENSG00000278948	RP5-1039K5.12,hsa-mir-425,TNS1	UCEC,TGCT,PRAD,UVM,THYM
ENSG00000278948	RP5-1039K5.12,hsa-mir-425,ZCCHC24	UCEC,TGCT,PRAD,UVM,THYM
ENSG00000278948	RP5-1039K5.12,hsa-mir-425,SSPN	UCEC,TGCT,PRAD,UVM,THYM
ENSG00000278948	RP5-1039K5.12,hsa-mir-146b,PDGFD	TGCT,THCA,PRAD,UVM,DLBC

Top

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
ENSG00000278948.1	ENST00000624344.1	222	10545	9877

	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