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Center for Computational Systems Medicine
Soverview

Gene summary

Soverview

RNA A-to-I events

Soverview

Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples

Soverview

Protein coding region RNA A-to-I editings

Soverview

The effects of the RNA editing to the miRNA binding sites

Soverview

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

Soverview

Relation with ADAR

Soverview

Relation with cancer stages

Soverview

Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: XCL1 (CAeditome ID:6375)

Gene summary for XCL1

check button Gene summary
Gene informationGene symbol

XCL1

Gene ID

6375

Gene nameX-C motif chemokine ligand 1
SynonymsATAC|LPTN|LTN|SCM-1|SCM-1a|SCM1|SCM1A|SCYC1
Cytomap

1q24.2

Type of geneprotein-coding
DescriptionlymphotactinSCM-1-alphaXC chemokine ligand 1c motif chemokine 1chemokine (C motif) ligand 1cytokine SCM-1lymphotaxinsingle cysteine motif 1asmall inducible cytokine subfamily C, member 1 (lymphotactin)small-inducible cytokine C1
Modification date20210518
UniProtAcc

P47992

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
XCL1

GO:0008009

Lymphotactin

7602097

XCL1

GO:0042379

Lymphotactin

9632725

XCL1

GO:0042803

Lymphotactin

11889129

XCL1

GO:0001916

Lymphotactin

18832695

XCL1

GO:0002725

Lymphotactin

10887101

XCL1

GO:0007267

Lymphotactin

7602097

XCL1

GO:0009615

Lymphotactin

14734774

XCL1

GO:0010820

Lymphotactin

7602097

XCL1

GO:0032689

Lymphotactin

10887101

XCL1

GO:0032703

Lymphotactin

10887101

XCL1

GO:0032733

Lymphotactin

18832695

XCL1

GO:0035782

Lymphotactin

9029087

XCL1

GO:0043433

Lymphotactin

10887101

XCL1

GO:0045892

Lymphotactin

10887101

XCL1

GO:0050727

Lymphotactin

18832695

XCL1

GO:0051281

Lymphotactin

7602097

XCL1

GO:0071636

Lymphotactin

18832695

XCL1

GO:0071663

Lymphotactin

18832695

XCL1

GO:2000503

Lymphotactin

9029087

XCL1

GO:2000513

Lymphotactin

18832695

XCL1

GO:2000518

Lymphotactin

10887101

XCL1

GO:2000562

Lymphotactin

10887101

XCL1

GO:2000566

Lymphotactin

10887101


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RNA A-to-I events for XCL1

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

check button RNA editing frequencies across 33 cancers of gene: ENSG00000143184.4

check button RNA A-to-I editing events in Cancer.
CAediting_119954(168576623, +), CAediting_119955(168576634, +), CAediting_119956(168576641, +),

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RNA editing positional annotations for XCL1 using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred
CAediting_119956chr1_168576641_+nonsynonymous SNVENST00000367818.3c.A4Gp.R2GDPN

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_119954chr1_168576623_+UTR5
CAediting_119955chr1_168576634_+UTR5
CAediting_119956chr1_168576641_+exonic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name

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RNA A-to-I editing events in the alternative splicing sites for XCL1

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeCAeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000143184.4.XCL1.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000143184.4.XCL1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for XCL1

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

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

check button - 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 XCL1

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


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The effects of the RNA editing to the miRNA binding sites for XCL1

**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.

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for XCL1

check button - RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.
ENSTENST typeRNA structure without RNA A-to-I editing.RNA structure with RNA A-to-I editing.
ENST00000367818.3protein_codingSoverviewSoverview

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
CAediting_119954ENST00000367818.3chr1_168576623_+-341.80-340.80-341.70
CAediting_119955ENST00000367818.3chr1_168576634_+-341.60-340.80-341.70
CAediting_119956ENST00000367818.3chr1_168576641_+-339.90-340.80-341.70

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Relation with ADAR for XCL1

check button Correlation between ADAR gene expression and RNA editing frequency
CancerCAeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)

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Relation with cancer stages for XCL1

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.

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Relation with survival for XCL1

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for XCL1

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for XCL1

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource