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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: CHL1 (CAeditome ID:10752)

Gene summary for CHL1

check button Gene summary
Gene informationGene symbol

CHL1

Gene ID

10752

Gene namecell adhesion molecule L1 like
SynonymsCALL|L1CAM2
Cytomap

3p26.3

Type of geneprotein-coding
Descriptionneural cell adhesion molecule L1-like proteinL1 cell adhesion molecule 2cell adhesion molecule with homology to L1CAM (close homolog of L1)cell adhesion molecule with homology to L1CAM (close homologue of L1)close homolog of L1
Modification date20210518
UniProtAcc

O00533

Context

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

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RNA A-to-I events for CHL1

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: ENSG00000134121.8

check button RNA A-to-I editing events in Cancer.
CAediting_253933(258973, +), CAediting_253934(259008, +), CAediting_253935(259013, +), CAediting_253936(259033, +), CAediting_253937(259051, +), CAediting_253938(259063, +), CAediting_253939(259073, +), CAediting_253940(259173, +), CAediting_253941(259182, +), CAediting_253942(259183, +), CAediting_253943(259184, +), CAediting_253944(259195, +), CAediting_253945(260009, +), CAediting_253946(260045, +), CAediting_253947(260064, +), CAediting_253948(260084, +), CAediting_253949(260089, +), CAediting_253950(260109, +), CAediting_253951(260143, +), CAediting_253952(260144, +), CAediting_253953(260149, +), CAediting_253954(260153, +), CAediting_253955(260170, +), CAediting_253956(260171, +), CAediting_253957(260185, +), CAediting_253958(268450, +), CAediting_253959(268455, +), CAediting_253960(268456, +), CAediting_253961(269803, +), CAediting_253962(276634, +), CAediting_253963(276635, +), CAediting_253964(276809, +), CAediting_253965(276834, +), CAediting_253966(391062, +), CAediting_253967(395694, +),

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RNA editing positional annotations for CHL1 using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_253933chr3_258973_+intronic
CAediting_253934chr3_259008_+intronic
CAediting_253935chr3_259013_+intronic
CAediting_253936chr3_259033_+intronic
CAediting_253937chr3_259051_+intronic
CAediting_253938chr3_259063_+intronic
CAediting_253939chr3_259073_+intronic
CAediting_253940chr3_259173_+intronic
CAediting_253941chr3_259182_+intronic
CAediting_253942chr3_259183_+intronic
CAediting_253943chr3_259184_+intronic
CAediting_253944chr3_259195_+intronic
CAediting_253945chr3_260009_+intronic
CAediting_253946chr3_260045_+intronic
CAediting_253947chr3_260064_+intronic
CAediting_253948chr3_260084_+intronic
CAediting_253949chr3_260089_+intronic
CAediting_253950chr3_260109_+intronic
CAediting_253951chr3_260143_+intronic
CAediting_253952chr3_260144_+intronic
CAediting_253953chr3_260149_+intronic
CAediting_253954chr3_260153_+intronic
CAediting_253955chr3_260170_+intronic
CAediting_253956chr3_260171_+intronic
CAediting_253957chr3_260185_+intronic
CAediting_253958chr3_268450_+intronic
CAediting_253959chr3_268455_+intronic
CAediting_253960chr3_268456_+intronic
CAediting_253961chr3_269803_+intronic
CAediting_253962chr3_276634_+intronic
CAediting_253963chr3_276635_+intronic
CAediting_253964chr3_276809_+intronic
CAediting_253965chr3_276834_+intronic
CAediting_253966chr3_391062_+exonic
CAediting_253967chr3_395694_+intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_253933chr3_258973_+SINEAluAluJb
CAediting_253934chr3_259008_+SINEAluAluJb
CAediting_253935chr3_259013_+SINEAluAluJb
CAediting_253936chr3_259033_+SINEAluAluJb
CAediting_253937chr3_259051_+SINEAluAluJb
CAediting_253938chr3_259063_+SINEAluAluJb
CAediting_253939chr3_259073_+SINEAluAluJb
CAediting_253940chr3_259173_+SINEAluAluJb
CAediting_253941chr3_259182_+SINEAluAluJb
CAediting_253942chr3_259183_+SINEAluAluJb
CAediting_253943chr3_259184_+SINEAluAluJb
CAediting_253944chr3_259195_+SINEAluAluJb
CAediting_253945chr3_260009_+SINEAluAluSz
CAediting_253946chr3_260045_+SINEAluAluSz
CAediting_253947chr3_260064_+SINEAluAluSz
CAediting_253948chr3_260084_+SINEAluAluSz
CAediting_253949chr3_260089_+SINEAluAluSz
CAediting_253950chr3_260109_+SINEAluAluSz
CAediting_253951chr3_260143_+SINEAluAluSz
CAediting_253952chr3_260144_+SINEAluAluSz
CAediting_253953chr3_260149_+SINEAluAluSz
CAediting_253954chr3_260153_+SINEAluAluSz
CAediting_253955chr3_260170_+SINEAluAluSz
CAediting_253956chr3_260171_+SINEAluAluSz
CAediting_253957chr3_260185_+SINEAluAluSz
CAediting_253958chr3_268450_+SINEAluAluSx1
CAediting_253959chr3_268455_+SINEAluAluSx1
CAediting_253960chr3_268456_+SINEAluAluSx1
CAediting_253961chr3_269803_+SINEAluAluSq2
CAediting_253962chr3_276634_+SINEAluAluY
CAediting_253963chr3_276635_+SINEAluAluY
CAediting_253964chr3_276809_+SINEAluAluY
CAediting_253965chr3_276834_+SINEAluAluY
CAediting_253967chr3_395694_+DNATcMar-MarinerMADE1

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RNA A-to-I editing events in the alternative splicing sites for CHL1

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 ENSG00000134121.8.CHL1.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000134121.8.CHL1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for CHL1

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 CHL1

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 CHL1

**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
CAediting_253966chr3_391062_+ENSG00000134121.8ENST00000453040hsa-miR-6830-5p3910553910617mer-m8391041391062158.00-26.04

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
CAediting_253966chr3_391062_+ENSG00000134121.8ENST00000453040hsa-miR-45213910563910638mer-1a391042391063150-19.73

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
CAediting_980496chr14_31014685_-ENSG00000134121.8ENST00000256509hsa-miR-624-3p4075054075117mer-m8407494407512156-22.26
CAediting_688080chr9_63819626_+ENSG00000134121.8ENST00000256509hsa-miR-4477b4072664072727mer-m8407252407273147-10.85
CAediting_688080chr9_63819626_+ENSG00000134121.8ENST00000256509hsa-miR-4477b4079634079697mer-m8407949407970148-13.93
CAediting_688080chr9_63819626_+ENSG00000134121.8ENST00000453040hsa-miR-4477b3446633446708mer-1a344652344670156-15.83
CAediting_980496chr14_31014685_-ENSG00000134121.8ENST00000620033hsa-miR-624-3p4075054075117mer-m8407494407512156-22.26
CAediting_688080chr9_63819626_+ENSG00000134121.8ENST00000620033hsa-miR-4477b4072664072727mer-m8407252407273147-10.85
CAediting_688080chr9_63819626_+ENSG00000134121.8ENST00000620033hsa-miR-4477b4079634079697mer-m8407949407970148-13.93
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4082514082588mer-1a408233408258141-7.17
CAediting_77128chr1_85133844_+ENSG00000134121.8ENST00000256509hsa-miR-4423-3p4064814064877mer-m8406468406488140-14.54
CAediting_228905chr2_188297554_+ENSG00000134121.8ENST00000256509hsa-miR-561-3p4084474084537mer-m8408433408454153-9.56
CAediting_580943chr7_100356700_+ENSG00000134121.8ENST00000256509hsa-miR-6840-3p4074614074688mer-1a407447407468159-28.72
CAediting_77128chr1_85133844_+ENSG00000134121.8ENST00000397491hsa-miR-4423-3p4064814064877mer-m8406468406488140-14.54
CAediting_1351755chr19_40282625_-ENSG00000134121.8ENST00000453040hsa-miR-6413494533494597mer-m8349437349460144-14.42
CAediting_228905chr2_188297554_+ENSG00000134121.8ENST00000453040hsa-miR-561-3p3910373910437mer-m8391023391044148-19.16
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4082514082588mer-1a408233408258141-7.17
CAediting_77128chr1_85133844_+ENSG00000134121.8ENST00000620033hsa-miR-4423-3p4064814064877mer-m8406468406488140-14.54
CAediting_228905chr2_188297554_+ENSG00000134121.8ENST00000620033hsa-miR-561-3p4084474084537mer-m8408433408454153-9.56
CAediting_580943chr7_100356700_+ENSG00000134121.8ENST00000620033hsa-miR-6840-3p4074614074688mer-1a407447407468159-28.72
CAediting_468389chr6_31355314_-ENSG00000134121.8ENST00000256509hsa-miR-6891-5p4075584075647mer-m8407546407565147-26.32
CAediting_468389chr6_31355314_-ENSG00000134121.8ENST00000620033hsa-miR-6891-5p4075584075647mer-m8407546407565147-26.32

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
CAediting_1160181chr17_7017644_-ENSG00000134121.8ENST00000256509hsa-miR-195-3p4068454068528mer-1a406832406852150-7.81
CAediting_1229414chr17_67471546_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229413chr17_67471544_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229414chr17_67471546_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_1229413chr17_67471544_+ENSG00000134121.8ENST00000256509hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_228905chr2_188297554_+ENSG00000134121.8ENST00000256509hsa-miR-561-3p4057804057856mer405764405786151-12.53
CAediting_1351755chr19_40282625_-ENSG00000134121.8ENST00000256509hsa-miR-6414074144074218mer-1a407398407421140-9.15
CAediting_1160181chr17_7017644_-ENSG00000134121.8ENST00000397491hsa-miR-195-3p4068454068517mer-m8406832406851150-7.61
CAediting_1160181chr17_7017644_-ENSG00000134121.8ENST00000620033hsa-miR-195-3p4068454068528mer-1a406832406852150-7.81
CAediting_1229414chr17_67471546_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229413chr17_67471544_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4067914067966mer406773406797143-15.44
CAediting_1229414chr17_67471546_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_1229415chr17_67471547_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_1229413chr17_67471544_+ENSG00000134121.8ENST00000620033hsa-miR-548aa4077244077307mer-m8407707407731149-11.24
CAediting_228905chr2_188297554_+ENSG00000134121.8ENST00000620033hsa-miR-561-3p4057804057856mer405764405786151-12.53
CAediting_1351755chr19_40282625_-ENSG00000134121.8ENST00000620033hsa-miR-6414074144074218mer-1a407398407421140-9.15

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 CHL1

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.
ENST00000256509.5protein_codingSoverviewSoverview
ENST00000397491.5protein_codingSoverviewSoverview
ENST00000453040.4nonsense_mediated_decaySoverviewSoverview
ENST00000445697.1protein_codingSoverviewSoverview
ENST00000620033.3protein_codingSoverviewSoverview

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
CAediting_253966ENST00000256509.5chr3_391062_+-2123.10-2118.80-2123.10
CAediting_253966ENST00000397491.5chr3_391062_+-1436.70-1433.00-1436.70
CAediting_253966ENST00000453040.4chr3_391062_+-1162.80-1159.10-1162.80
CAediting_253966ENST00000445697.1chr3_391062_+-275.10-270.80-275.10
CAediting_253966ENST00000620033.3chr3_391062_+-1833.70-1829.40-1833.70

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Relation with ADAR for CHL1

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 CHL1

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

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Relation with survival for CHL1

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for CHL1

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 CHL1

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
CHL1C0036341Schizophrenia2CTD_human
CHL1C0015923Fetal Alcohol Syndrome1PSYGENET
CHL1C0020796Profound Mental Retardation1CTD_human
CHL1C0025363Mental Retardation, Psychosocial1CTD_human
CHL1C0917816Mental deficiency1CTD_human
CHL1C2985290Fetal Alcohol Spectrum Disorders1PSYGENET
CHL1C3714756Intellectual Disability1CTD_human