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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 versus non-edited 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 AD stages

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene


Gene summary for CSTF1

check button Gene summary
Gene informationGene symbol

CSTF1

Gene ID

1477

Gene namecleavage stimulation factor subunit 1
SynonymsCstF-50|CstFp50
Cytomap

20q13.2-q13.31

Type of geneprotein-coding
Descriptioncleavage stimulation factor subunit 1CF-1 50 kDa subunitCSTF 50 kDa subunitcleavage stimulation factor 50 kDa subunitcleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDcleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa
Modification date20200313
UniProtAcc

Q05048,

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 CSTF1

check buttonRNA A-to-I editing events in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure.
* This pie chart shows the number of RNA A-to-I editing events in different types of transcripts (# event, percentage).
all structure

check button RNA editing frequencies across three data sets.
boxplot

check buttonThe number of RNA A-to-I editing events in different types of transcripts (# event, percentage).
boxplot

check button RNA A-to-I editing events in AD.
ADediting_946776(56404715, +), ADediting_946777(56405307, +), ADediting_946778(56405308, +), ADediting_946779(56405336, +), ADediting_946780(56405337, +), ADediting_946781(56405340, +), ADediting_946782(56405346, +), ADediting_946783(56405392, +), ADediting_946784(56405477, +), ADediting_1567550(56393338, +), ADediting_1567551(56393347, +), ADediting_1567552(56393361, +), ADediting_1567553(56393373, +), ADediting_1567554(56393378, +), ADediting_1567555(56393384, +), ADediting_1567556(56393387, +), ADediting_1567557(56393398, +), ADediting_1567558(56393401, +), ADediting_1567559(56393402, +), ADediting_1567560(56393407, +), ADediting_1567561(56393412, +), ADediting_1567562(56393413, +), ADediting_1567563(56393415, +), ADediting_1567564(56393418, +), ADediting_1567565(56393467, +), ADediting_1567566(56393474, +), ADediting_1567567(56395156, +), ADediting_1567568(56395157, +), ADediting_1567569(56395160, +), ADediting_1567570(56395191, +), ADediting_1567571(56395193, +), ADediting_1567572(56395194, +), ADediting_1567573(56395195, +), ADediting_1567574(56395198, +), ADediting_1567575(56395200, +), ADediting_1567576(56395203, +), ADediting_1567577(56395204, +), ADediting_1567578(56395213, +), ADediting_1567579(56395217, +), ADediting_1567580(56395230, +), ADediting_1567581(56395233, +), ADediting_1567582(56395234, +), ADediting_1567583(56395235, +), ADediting_1567584(56395257, +), ADediting_1567585(56395258, +), ADediting_1567586(56395259, +), ADediting_1567587(56395261, +), ADediting_1567588(56395268, +), ADediting_1567589(56395269, +), ADediting_1567590(56395271, +), ADediting_1567591(56395274, +), ADediting_1567592(56395309, +),

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RNA editing positional annotations for CSTF1 using Annovar

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

check button Gene structure information of RNA editing(s).
ADeditome IDPositionVariant type
ADediting_946776chr20_56404715_+UTR3
ADediting_946777chr20_56405307_+UTR3
ADediting_946778chr20_56405308_+UTR3
ADediting_946779chr20_56405336_+UTR3
ADediting_946780chr20_56405337_+UTR3
ADediting_946781chr20_56405340_+UTR3
ADediting_946782chr20_56405346_+UTR3
ADediting_946783chr20_56405392_+UTR3
ADediting_946784chr20_56405477_+UTR3
ADediting_1567550chr20_56393338_+intronic
ADediting_1567551chr20_56393347_+intronic
ADediting_1567552chr20_56393361_+intronic
ADediting_1567553chr20_56393373_+intronic
ADediting_1567554chr20_56393378_+intronic
ADediting_1567555chr20_56393384_+intronic
ADediting_1567556chr20_56393387_+intronic
ADediting_1567557chr20_56393398_+intronic
ADediting_1567558chr20_56393401_+intronic
ADediting_1567559chr20_56393402_+intronic
ADediting_1567560chr20_56393407_+intronic
ADediting_1567561chr20_56393412_+intronic
ADediting_1567562chr20_56393413_+intronic
ADediting_1567563chr20_56393415_+intronic
ADediting_1567564chr20_56393418_+intronic
ADediting_1567565chr20_56393467_+intronic
ADediting_1567566chr20_56393474_+intronic
ADediting_1567567chr20_56395156_+intronic
ADediting_1567568chr20_56395157_+intronic
ADediting_1567569chr20_56395160_+intronic
ADediting_1567570chr20_56395191_+intronic
ADediting_1567571chr20_56395193_+intronic
ADediting_1567572chr20_56395194_+intronic
ADediting_1567573chr20_56395195_+intronic
ADediting_1567574chr20_56395198_+intronic
ADediting_1567575chr20_56395200_+intronic
ADediting_1567576chr20_56395203_+intronic
ADediting_1567577chr20_56395204_+intronic
ADediting_1567578chr20_56395213_+intronic
ADediting_1567579chr20_56395217_+intronic
ADediting_1567580chr20_56395230_+intronic
ADediting_1567581chr20_56395233_+intronic
ADediting_1567582chr20_56395234_+intronic
ADediting_1567583chr20_56395235_+intronic
ADediting_1567584chr20_56395257_+intronic
ADediting_1567585chr20_56395258_+intronic
ADediting_1567586chr20_56395259_+intronic
ADediting_1567587chr20_56395261_+intronic
ADediting_1567588chr20_56395268_+intronic
ADediting_1567589chr20_56395269_+intronic
ADediting_1567590chr20_56395271_+intronic
ADediting_1567591chr20_56395274_+intronic
ADediting_1567592chr20_56395309_+intronic

check button Repat-regional RNA editing(s).
ADeditome IDPositionRepeat familyRepeat sub familyRepeat name
ADediting_946776chr20_56404715_+SINEAluName=AluY
ADediting_946777chr20_56405307_+SINEAluName=AluSp
ADediting_946778chr20_56405308_+SINEAluName=AluSp
ADediting_946779chr20_56405336_+SINEAluName=AluSp
ADediting_946780chr20_56405337_+SINEAluName=AluSp
ADediting_946781chr20_56405340_+SINEAluName=AluSp
ADediting_946782chr20_56405346_+SINEAluName=AluSp
ADediting_946783chr20_56405392_+SINEAluName=AluSp
ADediting_946784chr20_56405477_+SINEAluName=AluSp
ADediting_1567585chr20_56395258_+SINEMIRName=MIRb
ADediting_1567586chr20_56395259_+SINEMIRName=MIRb
ADediting_1567587chr20_56395261_+SINEMIRName=MIRb
ADediting_1567588chr20_56395268_+SINEMIRName=MIRb
ADediting_1567589chr20_56395269_+SINEMIRName=MIRb
ADediting_1567590chr20_56395271_+SINEMIRName=MIRb
ADediting_1567591chr20_56395274_+SINEMIRName=MIRb
ADediting_1567592chr20_56395309_+SINEMIRName=MIRb

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RNA A-to-I editing events in the alternative splicing sites for CSTF1

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

check button Differential pencent of spliced in (PSI) between RNA A-to-I edited and non-edited samples

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for CSTF1

check button Distribution of the averaged gene expression in AD and control with or without RNA A-to-I editing event.
* The grey color means N/A.

check button Distribution of the averaged gene isoform expression in AD and control with or without RNA A-to-I editing event.
boxplot
boxplot
boxplot
boxplot

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.

check button - Differentially expressed transcript 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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ADeditome IDChrPositoingSkipped exonENSGENSTs

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Protein coding region RNA A-to-I editings for CSTF1

check button- 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 CSTF1

check buttonRNA A-to-I editings in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure.
all structure

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_946776chr20_56404715_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-4537chr2056404712564047198mer-1a5640469756404719151-24.61
ADediting_946777chr20_56405307_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-12113chr2056405301564053077mer-1a5640528756405307142-20.82
ADediting_946779chr20_56405336_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-668-3pchr2056405331564053377mer-m85640531656405338150-22.7
ADediting_946781chr20_56405340_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-935chr2056405333564053397mer-m85640531756405340141-17.63
ADediting_946784chr20_56405477_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-383-3pchr2056405470564054767mer-m85640545956405477140-14.49
ADediting_946784chr20_56405477_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-7977chr2056405473564054797mer-m85640546356405480140-13.07

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_946776chr20_56404715_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-3160-3pchr2056404712564047198mer-1a5640469856404719153-19.77
ADediting_946777chr20_56405307_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-5707chr2056405303564053108mer-1a5640528956405310150-15.96
ADediting_946778chr20_56405308_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-5707chr2056405303564053108mer-1a5640528956405310150-15.96
ADediting_946781chr20_56405340_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-500a-5pchr2056405339564053457mer-1a5640532356405345140-20.48
ADediting_946781chr20_56405340_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-7975chr2056405336564053427mer-m85640532656405343147-15.72
ADediting_946783chr20_56405392_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-4684-5pchr2056405389564053957mer-m85640537556405396151-13.59

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

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

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_1337757chr7_5495852_-ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-589-3pchr2056404675564046817mer-m85640466056404682154-18.45
ADediting_1535951chr14_100874558_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-337-3pchr2056403979564039857mer-m85640396556403986141-11.28
ADediting_98289chr1_32086992_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-5585-3pchr2056406259564062668mer-1a5640624556406266153-16.43

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
ADeditom_IDPositionENSGENSTTranscript namemiRNA IDChromosomeTargtTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
ADediting_1535951chr14_100874558_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-337-3pchr2056404314564043218mer-1a5640430056404321147-8.48
ADediting_1535951chr14_100874558_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-337-3pchr2056405180564051878mer-1a5640516656405187145-7.09
ADediting_1643790chr3_121049689_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-5682chr2056405750564057567mer-m85640573456405757150-22.59
ADediting_843620chr2_207754818_+ENSG00000101138.12ENST00000217109.9CSTF1-201hsa-miR-4775chr2056404284564042918mer-1a5640427056404291140-5.09

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 CSTF1

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.
ENST00000217109.9protein_codingSoverviewSoverview

check button RNA A-to-I editing in miRNA.
ADeditom_IDENSTmir_IDEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

check button RNA A-to-I editing in mRNA.
ADeditom_IDENSTEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
ADediting_946776ENST00000217109.9chr20_56404715_+2385-1078.10-1078.40-1094.10
ADediting_946777ENST00000217109.9chr20_56405307_+2977-1079.60-1078.40-1094.10
ADediting_946778ENST00000217109.9chr20_56405308_+2978-1082.20-1078.40-1094.10
ADediting_946779ENST00000217109.9chr20_56405336_+3006-1079.40-1078.40-1094.10
ADediting_946780ENST00000217109.9chr20_56405337_+3007-1079.50-1078.40-1094.10
ADediting_946781ENST00000217109.9chr20_56405340_+3010-1082.10-1078.40-1094.10
ADediting_946782ENST00000217109.9chr20_56405346_+3016-1080.20-1078.40-1094.10
ADediting_946783ENST00000217109.9chr20_56405392_+3062-1081.40-1078.40-1094.10
ADediting_946784ENST00000217109.9chr20_56405477_+3147-1081.80-1078.40-1094.10

check button RNA A-to-I editing in lncRNA.
ADeditom_IDENSTEditing_InformationEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for CSTF1

check button Correlation between ADAR gene expression and RNA editing frequency
TissueADeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
CERADediting_1567584chr20_56395257_+0.0004685961049953690.2821527791448975.94102543723918e-060.3602689357142960.2925584253086390.0865007866563113
CERADediting_1567585chr20_56395258_+0.0006665327379142520.2747831661421870.0001598744500672980.3034810201901590.4436361859977730.0630140880877269
CERADediting_1567588chr20_56395268_+0.002607647430051670.2441233359341597.10275065243984e-060.3574567732206470.6616461576182580.0360230289395442
CERADediting_1567589chr20_56395269_+0.0005100219048485510.2803993767993691.83922876714119e-050.3420065674185040.4904049886123670.0567401665551811
CERADediting_1567590chr20_56395271_+0.0003717384192842710.2868881284427470.0001866946567247460.300505333646080.7792033020475530.0230811215997135
CERADediting_946776chr20_56404715_+0.001726406485004330.2537830066993893.42669951104142e-080.4318703809745070.01845180314518670.19221159358809
CERADediting_946784chr20_56405477_+0.01520545130102810.1978916076149465.6955701060669e-050.3225184583969610.09215251126961450.138006043445519

check button Correlation between ADAR gene expression and this gene's expression
TissueADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
DLPFC1.6949269187344e-1040.8854131357092584.14106745564451e-740.8123334274955650.001426498669261330.180377064557363
AC1.03538775211359e-1210.9443069633700872.8183322667848e-650.831569113365074.62823698506881e-120.419224121057093
PCC2.91891819240683e-650.8867825746759671.10062881182799e-560.8583855624811950.006485063394432470.196338766977214
CER6.05427479731897e-540.8956627231727773.93822392339482e-310.773652353529170.007666493920679370.216927814416685
TCX2.31372387033324e-560.9036171657658019.12866292582027e-150.5783746570913118.68749759946623e-050.314885625917834
FP1.03613586530951e-210.6377685699795621.60066427519503e-310.73508076847570.2638634338215340.0841900068908686
IFG2.23946672144457e-100.9120261531289827.54211530598775e-060.7675446971174970.2689499087708290.229888563819146
PG1.89598896290357e-550.8592214356919422.00684289846534e-310.7234235325811110.621520381276907-0.0364331849989715
STG4.64052739579222e-270.8711913002237734.33281739483342e-170.7611896298886870.1849879069131410.146041136892024

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Relation with AD stages for CSTF1

check button Correlation between AD stages and RNA editing frequency
TissueADeditomIDpositionP-valCoeff.

check button Correlation between AD stages and this gene's expression
TissueP-valCoeff.
CER0.0009340924493361840.314029888211784
TCX0.0001284592740621480.36344982963083

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RelatedDrugs for CSTF1

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for CSTF1

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource