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Editing gene: TGIF1 (CAeditome ID:7050)

Gene summary for TGIF1

Gene summary

Gene information	Gene symbol	TGIF1
	Gene ID	7050
	Gene name	TGFB induced factor homeobox 1
	Synonyms	HPE4\|TGIF
	Cytomap	18p11.31
	Type of gene	protein-coding
	Description	homeobox protein TGIF15'-TG-3'-interacting factor 1TALE homeobox TG-interacting factortransforming growth factor-beta-induced factor
	Modification date	20210518
	UniProtAcc	Q15583
	Context

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

Gene	GO ID	GO term	PubMed ID
TGIF1	GO:0000978	Homeobox protein TGIF1	10764806
TGIF1	GO:0001227	Homeobox protein TGIF1	10764806
TGIF1	GO:1990837	Homeobox protein TGIF1	28473536
TGIF1	GO:0000122	Homeobox protein TGIF1	10764806
TGIF1	GO:0005654	Homeobox protein TGIF1	0000052

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RNA A-to-I events for TGIF1

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: ENSG00000177426.19

RNA A-to-I editing events in Cancer.

CAediting_1251078(3417260, +), CAediting_1251079(3417343, +), CAediting_1251080(3419796, +), CAediting_1251081(3419824, +), CAediting_1251082(3427323, +), CAediting_1251083(3427340, +), CAediting_1251084(3427355, +), CAediting_1251085(3427739, +), CAediting_1251086(3428496, +), CAediting_1251087(3428630, +), CAediting_1251088(3429196, +), CAediting_1251089(3439401, +), CAediting_1251090(3439437, +), CAediting_1251091(3439444, +), CAediting_1251092(3442617, +), CAediting_1251093(3446245, +), CAediting_1251094(3446253, +), CAediting_1251095(3446301, +), CAediting_1251096(3446309, +), CAediting_1251097(3446310, +), CAediting_1251098(3446325, +), CAediting_1251099(3451789, +), CAediting_1251100(3453147, +), CAediting_1251101(3453212, +), CAediting_1251102(3453218, +), CAediting_1251103(3453234, +), CAediting_1251104(3453431, +), CAediting_1251105(3453432, +), CAediting_1251106(3453497, +), CAediting_1251107(3453501, +), CAediting_1251108(3453503, +), CAediting_1251109(3453510, +), CAediting_1251110(3453565, +), CAediting_1251111(3453582, +), CAediting_1251112(3453592, +), CAediting_1251113(3453636, +),

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RNA editing positional annotations for TGIF1 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_1251078	chr18_3417260_+	ncRNA_intronic
CAediting_1251079	chr18_3417343_+	ncRNA_intronic
CAediting_1251080	chr18_3419796_+	intronic
CAediting_1251081	chr18_3419824_+	intronic
CAediting_1251082	chr18_3427323_+	intronic
CAediting_1251083	chr18_3427340_+	intronic
CAediting_1251084	chr18_3427355_+	intronic
CAediting_1251085	chr18_3427739_+	intronic
CAediting_1251086	chr18_3428496_+	intronic
CAediting_1251087	chr18_3428630_+	intronic
CAediting_1251088	chr18_3429196_+	intronic
CAediting_1251089	chr18_3439401_+	intronic
CAediting_1251090	chr18_3439437_+	intronic
CAediting_1251091	chr18_3439444_+	intronic
CAediting_1251092	chr18_3442617_+	intronic
CAediting_1251093	chr18_3446245_+	intronic
CAediting_1251094	chr18_3446253_+	intronic
CAediting_1251095	chr18_3446301_+	intronic
CAediting_1251096	chr18_3446309_+	intronic
CAediting_1251097	chr18_3446310_+	intronic
CAediting_1251098	chr18_3446325_+	intronic
CAediting_1251099	chr18_3451789_+	UTR5
CAediting_1251100	chr18_3453147_+	intronic
CAediting_1251101	chr18_3453212_+	intronic
CAediting_1251102	chr18_3453218_+	intronic
CAediting_1251103	chr18_3453234_+	intronic
CAediting_1251104	chr18_3453431_+	intronic
CAediting_1251105	chr18_3453432_+	intronic
CAediting_1251106	chr18_3453497_+	intronic
CAediting_1251107	chr18_3453501_+	intronic
CAediting_1251108	chr18_3453503_+	intronic
CAediting_1251109	chr18_3453510_+	intronic
CAediting_1251110	chr18_3453565_+	intronic
CAediting_1251111	chr18_3453582_+	intronic
CAediting_1251112	chr18_3453592_+	intronic
CAediting_1251113	chr18_3453636_+	intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_1251078	chr18_3417260_+	SINE	Alu	AluSx
CAediting_1251079	chr18_3417343_+	SINE	Alu	AluSx
CAediting_1251080	chr18_3419796_+	SINE	Alu	AluSx
CAediting_1251081	chr18_3419824_+	SINE	Alu	AluSx
CAediting_1251082	chr18_3427323_+	SINE	Alu	AluSz
CAediting_1251083	chr18_3427340_+	SINE	Alu	AluSz
CAediting_1251084	chr18_3427355_+	SINE	Alu	AluSz
CAediting_1251085	chr18_3427739_+	SINE	Alu	AluSx1
CAediting_1251086	chr18_3428496_+	SINE	Alu	AluSc8
CAediting_1251087	chr18_3428630_+	SINE	Alu	AluSc8
CAediting_1251088	chr18_3429196_+	SINE	Alu	AluJo
CAediting_1251089	chr18_3439401_+	SINE	Alu	AluSp
CAediting_1251090	chr18_3439437_+	SINE	Alu	AluSp
CAediting_1251091	chr18_3439444_+	SINE	Alu	AluSp
CAediting_1251092	chr18_3442617_+	SINE	Alu	FAM
CAediting_1251093	chr18_3446245_+	SINE	Alu	AluSx
CAediting_1251094	chr18_3446253_+	SINE	Alu	AluSx
CAediting_1251095	chr18_3446301_+	SINE	Alu	AluSx
CAediting_1251096	chr18_3446309_+	SINE	Alu	AluSx
CAediting_1251097	chr18_3446310_+	SINE	Alu	AluSx
CAediting_1251098	chr18_3446325_+	SINE	Alu	AluSx
CAediting_1251100	chr18_3453147_+	SINE	Alu	FLAM_C
CAediting_1251101	chr18_3453212_+	SINE	Alu	FLAM_C
CAediting_1251102	chr18_3453218_+	SINE	Alu	FLAM_C
CAediting_1251103	chr18_3453234_+	SINE	Alu	FLAM_C
CAediting_1251104	chr18_3453431_+	SINE	Alu	AluSp
CAediting_1251105	chr18_3453432_+	SINE	Alu	AluSp
CAediting_1251106	chr18_3453497_+	SINE	Alu	AluSp
CAediting_1251107	chr18_3453501_+	SINE	Alu	AluSp
CAediting_1251108	chr18_3453503_+	SINE	Alu	AluSp
CAediting_1251109	chr18_3453510_+	SINE	Alu	AluSp
CAediting_1251110	chr18_3453565_+	SINE	Alu	AluSp
CAediting_1251111	chr18_3453582_+	SINE	Alu	AluSp
CAediting_1251112	chr18_3453592_+	SINE	Alu	AluSp
CAediting_1251113	chr18_3453636_+	SINE	Alu	AluSp

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RNA A-to-I editing events in the alternative splicing sites for TGIF1

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 ENSG00000177426.19.TGIF1.

Correlation between RNA A-to-I editing and PSI for ENSG00000177426.19.TGIF1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TGIF1

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 TGIF1

- 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 TGIF1

**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
CAediting_393	chr1_1167164_+	ENSG00000177426.19	ENST00000551402	hsa-miR-200b-3p	3456779	3456784	6mer	3456763	3456785	159	-20.87
CAediting_1368054	chr19_46709310_-	ENSG00000177426.19	ENST00000618001	hsa-miR-320e	3458526	3458532	7mer-m8	3458518	3458533	144	-15.63
CAediting_1368054	chr19_46709310_-	ENSG00000177426.19	ENST00000577543	hsa-miR-320e	3457520	3457526	7mer-m8	3457510	3457527	150	-18.24

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
CAediting_1351755	chr19_40282625_-	ENSG00000177426.19	ENST00000618001	hsa-miR-641	3458074	3458080	7mer-m8	3458054	3458081	141	-13.52
CAediting_1351755	chr19_40282625_-	ENSG00000177426.19	ENST00000551402	hsa-miR-641	3457097	3457103	7mer-m8	3457081	3457104	153	-13.47

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for TGIF1

- 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 TGIF1

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.)

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Relation with cancer stages for TGIF1

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
ESCA	clinical_stage	CAediting_1251105	chr18_3453432_+	0.00999047144720945	-0.448749982157635
LUAD	pathologic_stage	CAediting_1251105	chr18_3453432_+	0.0361778059009822	-0.256464398813638

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Relation with survival for TGIF1

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for TGIF1

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 TGIF1

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
TGIF1	C1840528	HOLOPROSENCEPHALY 4 (disorder)	3	CTD_human;GENOMICS_ENGLAND;UNIPROT
TGIF1	C0027626	Neoplasm Invasiveness	1	CTD_human
TGIF1	C0027627	Neoplasm Metastasis	1	CTD_human
TGIF1	C0078982	Arhinencephaly	1	CTD_human
TGIF1	C0079541	Holoprosencephaly	1	CTD_human;GENOMICS_ENGLAND
TGIF1	C0431362	Lobar Holoprosencephaly	1	CTD_human;ORPHANET
TGIF1	C0431363	Alobar Holoprosencephaly	1	CTD_human;ORPHANET
TGIF1	C0751617	Semilobar Holoprosencephaly	1	CTD_human;ORPHANET

	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