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lncRNA: ENSG00000247498

Summary for GPRC5D-AS1

Gene summary

Gene information	Ensembl ID	ENSG00000247498
	Gene symbol	GPRC5D-AS1
	Gene name	GPRC5D and HEBP1 antisense RNA 1
	HGNC	53599
	Entrez ID	100506314
	Gene type	antisense
	Synonyms	GPRC5D-AS1\|12p13.1\|RP11-392P7.6
	UniProtAcc

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Structure and expression level for GPRC5D-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

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000247498	-4.307606e-01	9.205327e-05	ACC	1.954534e-03
ENSG00000247498	5.903079e-01	1.971312e-05	CHOL	1.023379e-04

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lncRNA-Protein interaction for GPRC5D-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
ENSG00000247498	ENST00000499948	RP11-392P7.6	ENSG00000123636	BAZ2B	89.59	95.2781	Q9UIF8	TF,Epi	NA
ENSG00000247498	ENST00000545914	RP11-392P7.6	ENSG00000123636	BAZ2B	61.61	90.8081	Q9UIF8	TF,Epi	NA
ENSG00000247498	ENST00000538231	RP11-392P7.6	ENSG00000123636	BAZ2B	135.28	93.1395	Q9UIF8	TF,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
ENSG00000247498	ENST00000499948	RP11-392P7.6	ENSG00000123636	BAZ2B	89.59	95.3677	Q9UIF8	TF,Epi	NA
ENSG00000247498	ENST00000545914	RP11-392P7.6	ENSG00000123636	BAZ2B	61.61	90.6377	Q9UIF8	TF,Epi	NA
ENSG00000247498	ENST00000499948	RP11-392P7.6	ENSG00000196670	ZFP62	40.56	91.2249	Q8NB50	TF	NA
ENSG00000247498	ENST00000499948	RP11-392P7.6	ENSG00000198040	ZNF84	34.04	92.4771	P51523	TF	ChIP-seq

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

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lncRNA-DNA interaction for GPRC5D-AS1

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

Only predicted by TDF

TPI1,ERGIC2,AMN1,FAM234B,NT5C3B,MANSC1,UGGT2,MRPS35,BOD1,EMG1,PARP8,STRAP,WBP11,COPS7A,TMEM161A,MLF2,RGL3,PPL,DYNC2LI1,MBTD1,ZFP62,COA1,PAWR,LTBR,STAP2,ITFG2,ZNF84,SPICE1,CTPS2,HDAC8,GAS8,LRRC23,GPRC5D,USP5,HSBP1,TMEM99,BAZ2B,CCDC121,ALS2,GOLGB1,YARS2,HEBP1,B9D1,KRT8,PHOSPHO2,PCBD2,PIAS2,ATF7IP,C2CD5,MLH3,HOOK2,SWT1,CHMP4C,CCDC191,RNPC3,LRP6,ACP6,KIAA0753,NECAP1,PAN3,UQCC1

Exist in public source

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

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

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lncRNA-RNA interaction for GPRC5D-AS1

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

Only predicted by lncTar

TRPV2

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
ENSG00000247498	ENST00000499948	exon_skip_64939	chr11:112230207-112230230	-6.51	-0.8137	PTS	ENST00000280362	Frame-shift
ENSG00000247498	ENST00000499948	exon_skip_423795	chr4:55888887-55888932	-8.52	-0.2662	EXOC1	ENST00000346134,ENST00000381295	In-frame
ENSG00000247498	ENST00000499948	exon_skip_461111	chr6:90544551-90544632	-9.39	-0.1286	MAP3K7	ENST00000369329	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
ENSG00000247498	ENST00000499948	exon_skip_368285	chr22:29329711-29329720	-3.89	-0.7780	AP1B1	ENST00000357586,ENST00000405198	In-frame
ENSG00000247498	ENST00000499948	exon_skip_515330	chrX:65524563-65524614	-9.24	-0.2718	LAS1L	ENST00000374811	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 GPRC5D-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

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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
ENSG00000247498.8	ENST00000545914.4	48	6	149
ENSG00000247498.8	ENST00000540198.1	82	80	328
ENSG00000247498.8	ENST00000543515.5	70	211	2
ENSG00000247498.8	ENST00000542078.1	92	298	576
ENSG00000247498.8	ENST00000536029.1	62	162	350
ENSG00000247498.8	ENST00000394742.3	104	54	368
ENSG00000247498.8	ENST00000538231.1	80	5	247
ENSG00000247498.8	ENST00000607894.4	39	176	295
ENSG00000247498.8	ENST00000499948.2	68	408	202

	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