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Editing gene: LINC00993 (CAeditome ID:101929520)

Gene summary for LINC00993

Gene summary

Gene information	Gene symbol	LINC00993
	Gene ID	101929520
	Gene name	long intergenic non-protein coding RNA 993
	Synonyms	-
	Cytomap	10p11.21
	Type of gene	ncRNA
	Description	TCONS_l2_00002973
	Modification date	20210518
	UniProtAcc	.
	Context

Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Gene

GO ID

GO term

PubMed ID

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RNA A-to-I events for LINC00993

RNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.

RNA editing frequencies across 33 cancers of gene: ENSG00000235687.7

RNA A-to-I editing events in Cancer.

CAediting_744763(37309395, +), CAediting_744764(37309403, +), CAediting_744765(37309415, +), CAediting_744766(37309421, +), CAediting_744767(37309439, +), CAediting_744768(37309445, +), CAediting_744769(37309481, +), CAediting_744770(37310190, +), CAediting_744771(37310215, +), CAediting_744772(37310222, +), CAediting_744773(37310244, +), CAediting_744774(37310278, +), CAediting_744775(37310283, +), CAediting_744776(37310289, +), CAediting_744777(37310293, +), CAediting_744778(37310300, +), CAediting_744779(37310303, +), CAediting_744780(37310306, +), CAediting_744781(37310332, +), CAediting_744782(37310333, +), CAediting_744783(37310342, +), CAediting_744784(37310355, +), CAediting_744785(37310378, +), CAediting_744786(37311881, +), CAediting_744787(37311886, +), CAediting_744788(37311887, +), CAediting_744789(37311900, +), CAediting_744790(37311910, +), CAediting_744791(37311911, +), CAediting_744792(37311934, +), CAediting_744793(37311948, +), CAediting_744794(37311956, +), CAediting_744795(37311960, +), CAediting_744796(37311970, +), CAediting_744797(37311996, +), CAediting_744798(37312006, +), CAediting_744799(37312015, +), CAediting_744800(37312017, +), CAediting_744801(37312021, +), CAediting_744802(37312091, +), CAediting_744803(37312092, +), CAediting_744804(37312095, +), CAediting_744805(37312956, +), CAediting_744806(37312969, +), CAediting_744807(37312976, +), CAediting_744808(37312993, +), CAediting_744809(37313005, +), CAediting_744810(37313057, +), CAediting_744811(37313060, +), CAediting_744812(37313111, +), CAediting_744813(37313112, +), CAediting_744814(37322923, +), CAediting_744815(37322933, +), CAediting_744816(37322944, +), CAediting_744817(37322947, +), CAediting_744818(37322948, +), CAediting_744819(37322949, +), CAediting_744820(37322953, +), CAediting_744821(37322955, +), CAediting_744822(37322956, +), CAediting_744823(37322963, +), CAediting_744824(37322979, +), CAediting_744825(37322989, +), CAediting_744826(37323027, +), CAediting_744827(37323030, +), CAediting_744828(37323031, +), CAediting_744829(37323042, +), CAediting_744830(37325018, +), CAediting_744831(37325084, +), CAediting_744832(37325185, +), CAediting_744833(37325188, +),

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RNA editing positional annotations for LINC00993 using Annovar

Protein coding RNA editing(s).

CAeditome ID

Position

Variant type

ENST

NTchange

AAchange

SIFT_score

Polyphen2_HVAR_score

PROVEAN_pred

Gene structure information of RNA editing(s).

CAeditome ID	Position	Variant type
CAediting_744763	chr10_37309395_+	ncRNA_intronic
CAediting_744764	chr10_37309403_+	ncRNA_intronic
CAediting_744765	chr10_37309415_+	ncRNA_intronic
CAediting_744766	chr10_37309421_+	ncRNA_intronic
CAediting_744767	chr10_37309439_+	ncRNA_intronic
CAediting_744768	chr10_37309445_+	ncRNA_intronic
CAediting_744769	chr10_37309481_+	ncRNA_intronic
CAediting_744770	chr10_37310190_+	ncRNA_intronic
CAediting_744771	chr10_37310215_+	ncRNA_intronic
CAediting_744772	chr10_37310222_+	ncRNA_intronic
CAediting_744773	chr10_37310244_+	ncRNA_intronic
CAediting_744774	chr10_37310278_+	ncRNA_intronic
CAediting_744775	chr10_37310283_+	ncRNA_intronic
CAediting_744776	chr10_37310289_+	ncRNA_intronic
CAediting_744777	chr10_37310293_+	ncRNA_intronic
CAediting_744778	chr10_37310300_+	ncRNA_intronic
CAediting_744779	chr10_37310303_+	ncRNA_intronic
CAediting_744780	chr10_37310306_+	ncRNA_intronic
CAediting_744781	chr10_37310332_+	ncRNA_intronic
CAediting_744782	chr10_37310333_+	ncRNA_intronic
CAediting_744783	chr10_37310342_+	ncRNA_intronic
CAediting_744784	chr10_37310355_+	ncRNA_intronic
CAediting_744785	chr10_37310378_+	ncRNA_intronic
CAediting_744786	chr10_37311881_+	ncRNA_intronic
CAediting_744787	chr10_37311886_+	ncRNA_intronic
CAediting_744788	chr10_37311887_+	ncRNA_intronic
CAediting_744789	chr10_37311900_+	ncRNA_intronic
CAediting_744790	chr10_37311910_+	ncRNA_intronic
CAediting_744791	chr10_37311911_+	ncRNA_intronic
CAediting_744792	chr10_37311934_+	ncRNA_intronic
CAediting_744793	chr10_37311948_+	ncRNA_intronic
CAediting_744794	chr10_37311956_+	ncRNA_intronic
CAediting_744795	chr10_37311960_+	ncRNA_intronic
CAediting_744796	chr10_37311970_+	ncRNA_intronic
CAediting_744797	chr10_37311996_+	ncRNA_intronic
CAediting_744798	chr10_37312006_+	ncRNA_intronic
CAediting_744799	chr10_37312015_+	ncRNA_intronic
CAediting_744800	chr10_37312017_+	ncRNA_intronic
CAediting_744801	chr10_37312021_+	ncRNA_intronic
CAediting_744802	chr10_37312091_+	ncRNA_intronic
CAediting_744803	chr10_37312092_+	ncRNA_intronic
CAediting_744804	chr10_37312095_+	ncRNA_intronic
CAediting_744805	chr10_37312956_+	ncRNA_intronic
CAediting_744806	chr10_37312969_+	ncRNA_intronic
CAediting_744807	chr10_37312976_+	ncRNA_intronic
CAediting_744808	chr10_37312993_+	ncRNA_intronic
CAediting_744809	chr10_37313005_+	ncRNA_intronic
CAediting_744810	chr10_37313057_+	ncRNA_intronic
CAediting_744811	chr10_37313060_+	ncRNA_intronic
CAediting_744812	chr10_37313111_+	ncRNA_intronic
CAediting_744813	chr10_37313112_+	ncRNA_intronic
CAediting_744814	chr10_37322923_+	ncRNA_intronic
CAediting_744815	chr10_37322933_+	ncRNA_intronic
CAediting_744816	chr10_37322944_+	ncRNA_intronic
CAediting_744817	chr10_37322947_+	ncRNA_intronic
CAediting_744818	chr10_37322948_+	ncRNA_intronic
CAediting_744819	chr10_37322949_+	ncRNA_intronic
CAediting_744820	chr10_37322953_+	ncRNA_intronic
CAediting_744821	chr10_37322955_+	ncRNA_intronic
CAediting_744822	chr10_37322956_+	ncRNA_intronic
CAediting_744823	chr10_37322963_+	ncRNA_intronic
CAediting_744824	chr10_37322979_+	ncRNA_intronic
CAediting_744825	chr10_37322989_+	ncRNA_intronic
CAediting_744826	chr10_37323027_+	ncRNA_intronic
CAediting_744827	chr10_37323030_+	ncRNA_intronic
CAediting_744828	chr10_37323031_+	ncRNA_intronic
CAediting_744829	chr10_37323042_+	ncRNA_intronic
CAediting_744830	chr10_37325018_+	ncRNA_intronic
CAediting_744831	chr10_37325084_+	ncRNA_intronic
CAediting_744832	chr10_37325185_+	ncRNA_intronic
CAediting_744833	chr10_37325188_+	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_744763	chr10_37309395_+	SINE	Alu	AluJr4
CAediting_744764	chr10_37309403_+	SINE	Alu	AluJr4
CAediting_744765	chr10_37309415_+	SINE	Alu	AluJr4
CAediting_744766	chr10_37309421_+	SINE	Alu	AluJr4
CAediting_744767	chr10_37309439_+	SINE	Alu	AluJr4
CAediting_744768	chr10_37309445_+	SINE	Alu	AluJr4
CAediting_744769	chr10_37309481_+	SINE	Alu	AluJr4
CAediting_744770	chr10_37310190_+	SINE	Alu	AluSx1
CAediting_744771	chr10_37310215_+	SINE	Alu	AluSx1
CAediting_744772	chr10_37310222_+	SINE	Alu	AluSx1
CAediting_744773	chr10_37310244_+	SINE	Alu	AluSx1
CAediting_744774	chr10_37310278_+	SINE	Alu	AluSx1
CAediting_744775	chr10_37310283_+	SINE	Alu	AluSx1
CAediting_744776	chr10_37310289_+	SINE	Alu	AluSx1
CAediting_744777	chr10_37310293_+	SINE	Alu	AluSx1
CAediting_744778	chr10_37310300_+	SINE	Alu	AluSx1
CAediting_744779	chr10_37310303_+	SINE	Alu	AluSx1
CAediting_744780	chr10_37310306_+	SINE	Alu	AluSx1
CAediting_744781	chr10_37310332_+	SINE	Alu	AluSx1
CAediting_744782	chr10_37310333_+	SINE	Alu	AluSx1
CAediting_744783	chr10_37310342_+	SINE	Alu	AluSx1
CAediting_744784	chr10_37310355_+	SINE	Alu	AluSx1
CAediting_744785	chr10_37310378_+	SINE	Alu	AluSx1
CAediting_744786	chr10_37311881_+	SINE	Alu	AluSx3
CAediting_744787	chr10_37311886_+	SINE	Alu	AluSx3
CAediting_744788	chr10_37311887_+	SINE	Alu	AluSx3
CAediting_744789	chr10_37311900_+	SINE	Alu	AluSx3
CAediting_744790	chr10_37311910_+	SINE	Alu	AluSx3
CAediting_744791	chr10_37311911_+	SINE	Alu	AluSx3
CAediting_744792	chr10_37311934_+	SINE	Alu	AluSx3
CAediting_744793	chr10_37311948_+	SINE	Alu	AluSx3
CAediting_744794	chr10_37311956_+	SINE	Alu	AluSx3
CAediting_744795	chr10_37311960_+	SINE	Alu	AluSx3
CAediting_744796	chr10_37311970_+	SINE	Alu	AluSx3
CAediting_744797	chr10_37311996_+	SINE	Alu	AluSx3
CAediting_744798	chr10_37312006_+	SINE	Alu	AluSx3
CAediting_744799	chr10_37312015_+	SINE	Alu	AluSx3
CAediting_744800	chr10_37312017_+	SINE	Alu	AluSx3
CAediting_744801	chr10_37312021_+	SINE	Alu	AluSx3
CAediting_744802	chr10_37312091_+	SINE	Alu	AluSx3
CAediting_744803	chr10_37312092_+	SINE	Alu	AluSx3
CAediting_744804	chr10_37312095_+	SINE	Alu	AluSx3
CAediting_744805	chr10_37312956_+	SINE	Alu	AluSz
CAediting_744806	chr10_37312969_+	SINE	Alu	AluSz
CAediting_744807	chr10_37312976_+	SINE	Alu	AluSz
CAediting_744808	chr10_37312993_+	SINE	Alu	AluSz
CAediting_744809	chr10_37313005_+	SINE	Alu	AluSz
CAediting_744810	chr10_37313057_+	SINE	Alu	AluSz
CAediting_744811	chr10_37313060_+	SINE	Alu	AluSz
CAediting_744812	chr10_37313111_+	SINE	Alu	AluSz
CAediting_744813	chr10_37313112_+	SINE	Alu	AluSz
CAediting_744814	chr10_37322923_+	SINE	Alu	AluY
CAediting_744815	chr10_37322933_+	SINE	Alu	AluY
CAediting_744816	chr10_37322944_+	SINE	Alu	AluY
CAediting_744817	chr10_37322947_+	SINE	Alu	AluY
CAediting_744818	chr10_37322948_+	SINE	Alu	AluY
CAediting_744819	chr10_37322949_+	SINE	Alu	AluY
CAediting_744820	chr10_37322953_+	SINE	Alu	AluY
CAediting_744821	chr10_37322955_+	SINE	Alu	AluY
CAediting_744822	chr10_37322956_+	SINE	Alu	AluY
CAediting_744823	chr10_37322963_+	SINE	Alu	AluY
CAediting_744824	chr10_37322979_+	SINE	Alu	AluY
CAediting_744825	chr10_37322989_+	SINE	Alu	AluY
CAediting_744826	chr10_37323027_+	SINE	Alu	AluY
CAediting_744827	chr10_37323030_+	SINE	Alu	AluY
CAediting_744828	chr10_37323031_+	SINE	Alu	AluY
CAediting_744829	chr10_37323042_+	SINE	Alu	AluY
CAediting_744830	chr10_37325018_+	SINE	Alu	AluYb8
CAediting_744831	chr10_37325084_+	SINE	Alu	AluYb8
CAediting_744832	chr10_37325185_+	SINE	Alu	AluYb8
CAediting_744833	chr10_37325188_+	SINE	Alu	AluYb8

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RNA A-to-I editing events in the alternative splicing sites for LINC00993

RNA A-to-I editing(s) in the alternative splicing sites.

AStype

CAeditomID

Editing position

AS position

AS direction

Exonic location

Wildtype sequence

Wildtype splicing strength

RNA edited sequence

RNA edited splicing strength

Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000235687.7.LINC00993.

Correlation between RNA A-to-I editing and PSI for ENSG00000235687.7.LINC00993.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for LINC00993

Differential gene expressions between RNA A-to-I edited and non-edited tumor samples.
* The grey color means N/A.

Correlation between RNA A-to-I editing and gene expression.

- Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples.
* Click on the image to enlarge it in a new window.

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Protein coding region RNA A-to-I editings for LINC00993

- Lollipop plot for RNA A-to-I editings across protein structure.
* Click on the image to enlarge it in a new window.

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The effects of the RNA editing to the miRNA binding sites for LINC00993

**If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page.

RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in lncRNA gained miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in lncRNA lost miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs gained binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs lost binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for LINC00993

- RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.

ENST

ENST type

RNA structure without RNA A-to-I editing.

RNA structure with RNA A-to-I editing.

RNA A-to-I editing in RNA structures for Minimum free energy (MFE).

CAeditom_ID

ENST

Editing_Position

MFE_withoneAI

MFE_withoutAI

MFE_withmultipleAI

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Relation with ADAR for LINC00993

Correlation between ADAR gene expression and RNA editing frequency

Cancer	CAeditomID	position	ADAR1 (p-val)	ADAR1 (coeff.)	ADAR2 (p-val)	ADAR2 (coeff.)	ADAR3 (p-val)	ADAR3 (coeff.)
BRCA	CAediting_744794	chr10_37311956_+	0.00390305361244659	0.273029861800515	.	.	.	.

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Relation with cancer stages for LINC00993

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
BRCA	pathologic_stage	CAediting_744789	chr10_37311900_+	0.0177435522023358	0.321546296859282
BRCA	pathologic_stage	CAediting_744792	chr10_37311934_+	0.0199035088842471	0.215945935619529

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Relation with survival for LINC00993

Correlation between RNA editing and survival

Cancer	CAeditomID	position	KMpvalue	Coxpvalue	CoxHR
BRCA	CAediting_744793	chr10_37311948_+	0.00187439032706593	0.000326503	1048.01
BRCA	CAediting_744799	chr10_37312015_+	0.0470899677892619	0.0104592	656707

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RelatedDrugs for LINC00993

Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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RelatedDiseases for LINC00993

Diseases associated with this gene.
(DisGeNet 7.0)

Gene

Disease ID

Disease name

# pubmeds

Source

	Gene summary
	RNA A-to-I events
	Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples
	Protein coding region RNA A-to-I editings
	The effects of the RNA editing to the miRNA binding sites
	The effects of the RNA editing to the stability of the RNA structures
	Relation with ADAR
	Relation with cancer stages
	Relation with survival state
	Related drugs with this gene
	Related diseases with this gene