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lncRNA: ENSG00000267640

Summary for CTD-2554C21.2

Gene summary

Gene information	Ensembl ID	ENSG00000267640
	Gene symbol	CTD-2554C21.2
	Gene name
	HGNC
	Entrez ID
	Gene type	lincRNA
	Synonyms
	UniProtAcc

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Structure and expression level for CTD-2554C21.2

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
ENSG00000267640	7.904875e+01	-1.094711e+00	1.697250e-01	-6.449910e+00	1.120000e-10	3.670000e-10	DOWN	KIRC

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000267640	-4.375683e-01	7.926590e-30	KIRC	2.547833e-28

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lncRNA-Protein interaction for CTD-2554C21.2

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
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000110851	PRDM4	15.79	90.7623	Q9UKN5	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000171634	BPTF	13.81	96.3547	Q12830	TF,Epi	NA
ENSG00000267640	ENST00000587248	CTD-2554C21.2	ENSG00000171634	BPTF	38.73	92.044	Q12830	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000116539	ASH1L	15.09	94.7609	Q9NR48	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000102974	CTCF	10.54	93.4325	P49711	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
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000120784	ZFP30	18.72	90.4541	Q9Y2G7	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000110851	PRDM4	15.79	90.7399	Q9UKN5	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000116539	ASH1L	15.09	94.7472	Q9NR48	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000196867	ZFP28	14.93	92.4312	Q8NHY6	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000171634	BPTF	13.81	96.2976	Q12830	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000147124	ZNF41	13.3	92.435	P51814	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000167232	ZNF91	12.57	90.6255	Q05481	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000102974	CTCF	10.54	93.2696	P49711	TF,Epi	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000117000	RLF	10.47	96.6347	Q13129	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000186130	ZBTB6	10.23	91.2165	Q15916	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000168795	ZBTB5	9.63	93.0927	O15062	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000186660	ZFP91	8.2	92.7685	Q96JP5	TF	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000184939	ZFP90	7.05	90.1455	Q8TF47	TF	NA
ENSG00000267640	ENST00000587248	CTD-2554C21.2	ENSG00000171634	BPTF	38.73	92.1563	Q12830	TF,Epi	NA

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
ENSG00000267640	ENST00000586819	CTD-2554C21.2	ENSG00000021776	AQR	54.72	92.1603	O60306	RBP	NA
ENSG00000267640	ENST00000589653	CTD-2554C21.2	ENSG00000167978	SRRM2	4.81	95.3467	Q9UQ35	RBP	NA

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lncRNA-DNA interaction for CTD-2554C21.2

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.

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lncRNA-RNA interaction for CTD-2554C21.2

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 Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

ORF mutation

-lncRNA and exonskipping events are negatively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

LOF

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 CTD-2554C21.2

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
ENSG00000267640.4	ENST00000589653.4	58	1161	1337
ENSG00000267640.4	ENST00000590433.4	163	67	558
ENSG00000267640.4	ENST00000592103.4	116	15	365
ENSG00000267640.4	ENST00000587248.4	89	16	285
ENSG00000267640.4	ENST00000586819.1	75	180	407

	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