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lncRNA: ENSG00000237310

Summary for GS1-124K5.4

Gene summary

Gene information	Ensembl ID	ENSG00000237310
	Gene symbol	GS1-124K5.4
	Gene name
	HGNC
	Entrez ID	100289098
	Gene type	lincRNA
	Synonyms
	UniProtAcc

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Structure and expression level for GS1-124K5.4

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
ENSG00000237310	6.760251e+01	-1.580383e+00	2.990121e-01	-5.285348e+00	1.250000e-07	9.760000e-07	DOWN	CHOL
ENSG00000237310	1.155788e+02	1.511299e+00	1.450253e-01	1.042093e+01	1.990000e-25	1.710000e-24	UP	LUSC
ENSG00000237310	3.851549e+01	1.292265e+00	1.547225e-01	8.352146e+00	6.700000e-17	7.110000e-16	UP	COAD
ENSG00000237310	4.800023e+01	1.220822e+00	3.058236e-01	3.991917e+00	6.550000e-05	5.191820e-04	UP	READ

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID

Correlation

P-value

Cancer Type

Adjc.p-value

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lncRNA-Protein interaction for GS1-124K5.4

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

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lncRNA-DNA interaction for GS1-124K5.4

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 GS1-124K5.4

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

Only predicted by lncTar

SMAD1,CIC,SON,BAZ2A,QKI,REST,HBP1,ZEB1,ZEB2,BBX,TEP1,SATB1,ELF1,SP100,ZNF28,RREB1,ETS1,FOXN3,FOXJ3,G3BP1,MBNL1,STAT6,SP2,ARNT,SF3A1,PRDM2,BICC1,KLF7,ADNP2,BPTF,ATF1,CELF1,NCOA2,DDX60,KMT2A,SRCAP,DDX46,KDM2A,PUM1,SKIL,NR2C2,SYNJ1,RBM7,KLF13,NCOA1

Exist in public source

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 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
ENSG00000237310	ENST00000452565	exon_skip_305660	chr19:35269802-35270003	-29.20	-0.1640	USF2	ENST00000222305	In-frame
ENSG00000237310	ENST00000452565	exon_skip_132355	chr16:1786756-1786955	-27.89	-0.1541	NUBP2	ENST00000262302	Frame-shift
ENSG00000237310	ENST00000452565	exon_skip_436035	chr5:79656957-79657001	-6.16	-0.8800	TENT2	ENST00000296783,ENST00000428308,ENST00000453514	Frame-shift
ENSG00000237310	ENST00000452565	exon_skip_494079	chr8:144099080-144099205	-19.33	-0.2078	SHARPIN	ENST00000398712	Frame-shift
ENSG00000237310	ENST00000452565	exon_skip_303345	chr19:17227839-17228005	-21.13	-0.1577	OCEL1	ENST00000215061	Frame-shift

lncRNA targets by miRNA.

LncRNA Ensembl ID	miRNA ID	LncRNA ENST ID	Binding site in lncRNA	Score	Energy	Align Len	Public source
ENSG00000237310	hsa-mir-221	ENST00000445681	chr7:66494069-66494174	185.00	-76.44	109	NA
ENSG00000237310	hsa-mir-221	ENST00000445681	chr7:66493943-66494057	181.00	-88.82	116	NA
ENSG00000237310	hsa-mir-221	ENST00000445681	chr7:66493839-66493943	171.00	-102.97	93	NA
ENSG00000237310	hsa-mir-221	ENST00000445681	chr7:66493715-66493834	141.00	-110.23	120	NA
ENSG00000237310	hsa-mir-221	ENST00000452565	chr7:66494065-66494170	185.00	-76.44	109	NA
ENSG00000237310	hsa-mir-221	ENST00000452565	chr7:66493943-66494053	175.00	-88.64	113	NA
ENSG00000237310	hsa-mir-221	ENST00000452565	chr7:66493839-66493943	171.00	-102.97	93	NA

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Variants for GS1-124K5.4

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
ENSG00000237310.1	ENST00000445681.1	76	28	258
ENSG00000237310.1	ENST00000452565.1	61	3	188

	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