lncRNAfunc Logo

Home

Download

Statistics

Landscape

Help

Contact

Center for Computational Systems Medicine
leaf

lncRNA summary

leaf

lncRNA structure and expression level

leaf

lncRNA-Protein interaction

leaf

lncRNA-DNA interaction

leaf

lncRNA-RNA interaction

leaf

Variants in lncRNA

leaf

lncRNAs regulate the target genes through functioning as enhancers

leaf

lncRNAs regulate the target genes through recruiting transcript factors

leaf

lncRNAs regulate the alternative splicing events through interacting with splicing factor

leaf

lncRNAs regulate mRNA through targeting the 3'-UTR region

leaf

lncRNAs regulate mRNA by competing with miRNA

leaf

lncRNA coding potential

lncRNA: ENSG00000257698

Summary for GIHCG

check button Gene summary

Gene informationEnsembl ID

ENSG00000257698

Gene symbol

GIHCG

Gene nameGIHCG inhibitor of miR-200b/200a/429 expression
HGNC

52649

Entrez ID

100506844

Gene typelincRNA
Synonyms12q14.1|GIHCG|RP11-620J15.3
UniProtAcc

Top

Structure and expression level for GIHCG

check buttonAS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.
UCSC result

check buttonDifferentially expressed gene analysis between cancer and normal samples.
DEG result
Ensembl IDBase meanlog2FC(AD/control)lfcSEStatP-valueAdjc.p-valueDEG direction Cancer type
ENSG000002576981.463618e+022.251193e+004.916176e-014.579155e+004.670000e-062.700000e-05UPCHOL
ENSG000002576986.144945e+021.272259e+001.422371e-018.944642e+003.730000e-198.180000e-18UPKIRP
ENSG000002576981.048542e+021.640301e+001.528962e-011.072820e+017.500000e-272.770000e-25UPLIHC
ENSG000002576989.693652e+01-1.355631e+001.973050e-01-6.870738e+006.390000e-121.110000e-10DOWNSTAD

check buttonCorrelation between lncRNAs and cancer stages.
LncRNA Ensembl IDCorrelationP-valueCancer TypeAdjc.p-value
ENSG000002576985.377178e-011.393979e-04CHOL3.881908e-04
ENSG000002576984.039685e-013.914441e-17LIHC1.034531e-15

Top

lncRNA-Protein interaction for GIHCG

lncrna_protein
check buttonlncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

check buttonlncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

check buttonlncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).
LncRNA Ensembl IDLncRNA ENST IDLncRNA NameProtein Ensembl IDProtein NameCatRAPID ScoreLncpro ScoreUniPortIDGene SubtypePublic source

Top

lncRNA-DNA interaction for GIHCG

lncrna_DNA
check buttonlncRNA targets the enhancer region and positively regulates the gene expression.

check buttonlncRNA targets the promoter region and positively regulates the gene expression.

check buttonlncRNA targets the promoter region and negatively regulates the gene expression.

Top

lncRNA-RNA interaction for GIHCG

lncrna_RNA
check buttonlncRNA targets the 3'UTR region and negatively regulates the mRNA.
Only predicted by lncTar
EHF,UBR5,ZNF28,NCOA2,DDX60,NFAT5,GLYR1,PUM1,REST,SF3A1,SP100,HBP1,PPARA,G3BP2,HELZ2,ADNP2,NCOA1
Exist in public source
NA

check buttonlncRNA targets the skipped exon region.
-lncRNA and exonskipping events are positively correlated.
lncRNA and exonskipping events positive correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonORF mutation
ENSG00000257698ENST00000553102exon_skip_26444chr1:46688352-46688544-18.62-0.1340EFCAB14ENST00000371933In-frame
ENSG00000257698ENST00000553102exon_skip_33516chr1:156938417-156938513-10.46-0.1308ARHGEF11ENST00000361409In-frame
ENSG00000257698ENST00000553102exon_skip_52231chr10:93392916-93392955-5.83-0.6478MYOFENST00000359263In-frame
ENSG00000257698ENST00000553102exon_skip_293641chr17:76091142-76091235-11.56-0.1541EXOC7ENST00000589210In-frame
ENSG00000257698ENST00000553102exon_skip_337919chr2:27445744-27445843-9.95-0.1345IFT172ENST00000260570In-frame
ENSG00000257698ENST00000553102exon_skip_451515chr6:41080810-41080897-11.52-0.1371NFYAENST00000341376In-frame
ENSG00000257698ENST00000553102exon_skip_460899chr6:85538837-85538864-5.46-0.3412SNX14ENST00000314673In-frame
ENSG00000257698ENST00000553102exon_skip_514511chrX:41555599-41555635-7.54-0.2513CASKENST00000378163In-frame
ENSG00000257698ENST00000553102exon_skip_332068chr2:191402631-191402718-10.23-0.1233MYO1BENST00000304164,ENST00000392318In-frame

-lncRNA and exonskipping events are negatively correlated.
lncRNA and exonskipping events negative correlated
LncRNA Ensembl IDLncRNA ENST IDExon IDSkipped ExondGndGGene name with skipped exonTransID with skipped exonLOF
ENSG00000257698ENST00000553102exon_skip_2091chr1:17634547-17634562-6.04-0.4314ARHGEF10LENST00000361221In-frame
ENSG00000257698ENST00000553102exon_skip_6419chr1:51756319-51756358-10.33-0.4132OSBPL9ENST00000428468In-frame
ENSG00000257698ENST00000553102exon_skip_11286chr1:155061903-155061975-16.36-0.3481ADAM15ENST00000356955In-frame
ENSG00000257698ENST00000553102exon_skip_14329chr1:178892229-178892307-12.66-0.2010RALGPS2ENST00000367635In-frame
ENSG00000257698ENST00000553102exon_skip_44853chr10:104010815-104010908-9.18-0.1177SLKENST00000369755In-frame
ENSG00000257698ENST00000553102exon_skip_59476chr11:57815914-57816001-13.00-0.1970CTNND1ENST00000399050In-frame
ENSG00000257698ENST00000553102exon_skip_114200chr14:73279280-73279424-17.14-0.1731NUMBENST00000355058,ENST00000555238In-frame
ENSG00000257698ENST00000553102exon_skip_114365chr14:74290026-74290118-10.32-0.1274ABCD4ENST00000356924Frame-shift
ENSG00000257698ENST00000553102exon_skip_114376chr14:74293153-74293248-11.74-0.1334ABCD4ENST00000356924Frame-shift
ENSG00000257698ENST00000553102exon_skip_132355chr16:1786756-1786955-23.26-0.1218NUBP2ENST00000262302Frame-shift
ENSG00000257698ENST00000553102exon_skip_148110chr17:4892401-4892512-13.90-0.1324MINK1ENST00000355280In-frame
ENSG00000257698ENST00000553102exon_skip_319223chr19:43526200-43526349-17.00-0.1604ETHE1ENST00000292147Frame-shift
ENSG00000257698ENST00000553102exon_skip_324294chr2:27774423-27774530-10.60-0.1582MRPL33ENST00000296102Frame-shift
ENSG00000257698ENST00000553102exon_skip_374375chr3:49675182-49675309-14.20-0.1797APEHENST00000296456Frame-shift
ENSG00000257698ENST00000553102exon_skip_375623chr3:58141857-58141929-10.19-0.1477FLNBENST00000295956In-frame
ENSG00000257698ENST00000553102exon_skip_386291chr3:108050577-108050602-5.18-0.3985CD47ENST00000361309Frame-shift
ENSG00000257698ENST00000553102exon_skip_423795chr4:55888887-55888932-8.17-0.2723EXOC1ENST00000346134,ENST00000381295In-frame
ENSG00000257698ENST00000553102exon_skip_439146chr5:154950820-154950938-11.54-0.1407MRPL22ENST00000523037Frame-shift
ENSG00000257698ENST00000553102exon_skip_476029chr7:65974918-65975071-13.77-0.1020GUSBENST00000304895In-frame
ENSG00000257698ENST00000553102exon_skip_481821chr8:22067084-22067159-10.47-0.2228DMTNENST00000265800,ENST00000358242,ENST00000432128,ENST00000523266In-frame
ENSG00000257698ENST00000553102exon_skip_488959chr8:27748494-27748598-8.08-0.1010CCDC25ENST00000356537Frame-shift
ENSG00000257698ENST00000546580exon_skip_41841chr10:68756272-68756483-20.06-0.1029CCAR1ENST00000265872Frame-shift
ENSG00000257698ENST00000553102exon_skip_66185chr11:124626472-124626609-13.14-0.1729TBRG1ENST00000441174Frame-shift
ENSG00000257698ENST00000553102exon_skip_66800chr11:130123611-130123779-15.65-0.1016APLP2ENST00000263574In-frame
ENSG00000257698ENST00000553102exon_skip_382458chr3:38131595-38131638-7.21-0.1759ACAA1ENST00000333167Frame-shift
ENSG00000257698ENST00000553102exon_skip_462160chr6:127316449-127316502-5.68-0.2470ECHDC1ENST00000531967Frame-shift
ENSG00000257698ENST00000553102exon_skip_466113chr7:48099669-48099787-12.68-0.3019UPP1ENST00000331803,ENST00000395564Frame-shift
ENSG00000257698ENST00000551421exon_skip_494000chr8:143922503-143925884-35.97-0.1160PLECENST00000322810In-frame
ENSG00000257698ENST00000546580exon_skip_356468chr20:35280653-35280829-21.62-0.2514EIF6ENST00000374436,ENST00000374450Frame-shift
ENSG00000257698ENST00000553102exon_skip_5818chr1:45568484-45568684-16.20-0.1080AKR1A1ENST00000351829,ENST00000372070Frame-shift
ENSG00000257698ENST00000553102exon_skip_111870chr14:23566561-23566686-11.76-0.1023AP1G2ENST00000397120Frame-shift
ENSG00000257698ENST00000553102exon_skip_141221chr16:3023473-3023530-16.82-0.4102HCFC1R1ENST00000574980In-frame
ENSG00000257698ENST00000553102exon_skip_371547chr3:9928579-9928630-7.62-0.2458IL17RCENST00000295981In-frame
ENSG00000257698ENST00000553102exon_skip_303345chr19:17227839-17228005-15.26-0.1122OCEL1ENST00000215061Frame-shift
ENSG00000257698ENST00000553102exon_skip_41633chr10:50127159-50127222-8.07-0.1717WASHC2AENST00000282633In-frame

check buttonlncRNA targets by miRNA.
lncRNA targets by miRNA
LncRNA Ensembl IDmiRNA IDLncRNA ENST IDBinding site in lncRNAScoreEnergyAlign LenPublic source
ENSG00000257698hsa-mir-22ENST00000551421chr12:57931779-57931859179.00-76.0784NA
ENSG00000257698hsa-mir-22ENST00000551421chr12:57931648-57931723164.00-70.8779NA
ENSG00000257698hsa-mir-22ENST00000551421chr12:57931541-57931636147.00-82.2494NA
ENSG00000257698hsa-mir-22ENST00000547492chr12:57932169-57932249179.00-76.0784NA
ENSG00000257698hsa-mir-22ENST00000547492chr12:57931669-57931744164.00-70.8779NA
ENSG00000257698hsa-mir-22ENST00000547492chr12:57932061-57932140146.00-64.0476NA
ENSG00000257698hsa-mir-22ENST00000547492chr12:57931570-57931657145.00-73.8184NA
ENSG00000257698hsa-mir-22ENST00000546580chr12:57932019-57932099179.00-76.0784NA
ENSG00000257698hsa-mir-22ENST00000546580chr12:57931648-57931752166.00-92.5199NA
ENSG00000257698hsa-mir-22ENST00000546580chr12:57931804-57931879164.00-70.8779NA
ENSG00000257698hsa-mir-22ENST00000546580chr12:57931866-57931959142.00-79.1187NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935422-57935501169.00-71.4680NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935178-57935253164.00-70.8779NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935675-57935759149.00-68.2884NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935075-57935166145.00-74.8084NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935240-57935333142.00-79.1187NA
ENSG00000257698hsa-mir-22ENST00000553102chr12:57935577-57935669141.00-78.1091NA

Top

Variants for GIHCG

check buttonRNA A-to-I editing events in lncRNA.
LncRNAediting IDLncRNA Ensembl IDChromosomeEditing PositionStrandGene TypeGene NameTranscript IDTranscript TypeTranscript Name

check buttonEdited-associated DElncRNAs in cancer.
LncRNA Ensembl IDLncRNA IndexCancer TypeChr_Postion_StrandAVE1AVE2log2FCW-valueP-valueAdjc.p-valueChange

check buttonCorrelation between RNA A-to-I editing events's frequecy and lncRNA expression.
LncRNA Ensembl IDLncRNA IndexCorrelationP-valueAdjc.p-value

check buttonCis-expression quantitative trait loci(cis-eQTL) of lncRNA.
LncRNA Ensembl IDLncRNA NameSNP infoNumber of Positive corelated CancerPositive corelated CancerNumber of Negative corelated CancerNegative corelated Cancer

Top

lncRNAs regulate the target genes through functioning as enhancers

lncrna_enhancer
check buttonlncRNA regulates differentially expressed genes by function as enhancer.
LncRNA Ensembl IDPC Gene IDPC Gene NamePositive correlated cancersCancer with PC gene up-regulationCancer with PC gene down-regulation

Top

lncRNAs regulate the target genes through recruiting transcript factors

lncrna_TF
check buttonLncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types

check buttonLncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).
lncRNA IDTF IDTF NamePCgene IDPCgene NameNumber of CancerCanaer Types

Top

lncRNAs regulate the alternative splicing event through interacting with splicing factor

lncrna_AS
check buttonLncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

check buttonLncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.
LncRNA Ensembl IDRBP IDRBP Gene NameExon Skipping IDSkipped ExonEX Gene NameEX Affected TransIDORF_annoCancer Type

Top

lncRNAs regulate mRNA through targeting the 3'-UTR region

lncrna_mRNA
check buttonlncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.
LncRNA Ensembl IDLncRNA ENST IDPC Gene NamePC Gene IDPC ENST IDdGnDGCancer with PC gene up-regulationCancer with PC gene Down-regulation

Top

lncRNAs regulate mRNA by competing with miRNA

lncrna_miRNA
check buttonlncRNA regulates mRNA by competing the miRNA binding site with mRNA.
LncRNA Ensembl IDlncRNA-miRNA-mRNACancer Types

Top

lncRNA coding potential

check buttonORFfinder result for the gencode.v22.lncRNA.transcript.fa.
lncRNA Ensembl IDlncRNA ENST IDlength(AA)start at transcriptend at transcript
ENSG00000257698.1ENST00000551421.11581250774
ENSG00000257698.1ENST00000547492.163177368
ENSG00000257698.1ENST00000546580.1124731357
ENSG00000257698.1ENST00000553102.165371174