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Editing gene: SH3TC1 (CAeditome ID:54436)

Gene summary for SH3TC1

Gene summary

Gene information	Gene symbol	SH3TC1
	Gene ID	54436
	Gene name	SH3 domain and tetratricopeptide repeats 1
	Synonyms	-
	Cytomap	4p16.1
	Type of gene	protein-coding
	Description	SH3 domain and tetratricopeptide repeat-containing protein 1SH3 domain and tetratricopeptide repeats-containing protein 1
	Modification date	20210518
	UniProtAcc	Q8TE82
	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 SH3TC1

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: ENSG00000125089.15

RNA A-to-I editing events in Cancer.

CAediting_349673(8192203, +), CAediting_349674(8203525, +), CAediting_349675(8203551, +), CAediting_349676(8203589, +), CAediting_349677(8203606, +), CAediting_349678(8203608, +), CAediting_349679(8203639, +), CAediting_349680(8203647, +), CAediting_349681(8203648, +), CAediting_349682(8203654, +), CAediting_349683(8203678, +), CAediting_349684(8203680, +), CAediting_349685(8203682, +), CAediting_349686(8203717, +), CAediting_349687(8204192, +), CAediting_349688(8204193, +), CAediting_349689(8204204, +), CAediting_349690(8204221, +), CAediting_349691(8204226, +), CAediting_349692(8204252, +), CAediting_349693(8204281, +), CAediting_349694(8204306, +), CAediting_349695(8204329, +), CAediting_349696(8204345, +), CAediting_349697(8204357, +), CAediting_349698(8204382, +), CAediting_349699(8204387, +), CAediting_349700(8204392, +), CAediting_349701(8204405, +), CAediting_349702(8225018, +), CAediting_349703(8236318, +),

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RNA editing positional annotations for SH3TC1 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_349673	chr4_8192203_+	ncRNA_intronic
CAediting_349674	chr4_8203525_+	ncRNA_intronic
CAediting_349675	chr4_8203551_+	ncRNA_intronic
CAediting_349676	chr4_8203589_+	ncRNA_intronic
CAediting_349677	chr4_8203606_+	ncRNA_intronic
CAediting_349678	chr4_8203608_+	ncRNA_intronic
CAediting_349679	chr4_8203639_+	ncRNA_intronic
CAediting_349680	chr4_8203647_+	ncRNA_intronic
CAediting_349681	chr4_8203648_+	ncRNA_intronic
CAediting_349682	chr4_8203654_+	ncRNA_intronic
CAediting_349683	chr4_8203678_+	ncRNA_intronic
CAediting_349684	chr4_8203680_+	ncRNA_intronic
CAediting_349685	chr4_8203682_+	ncRNA_intronic
CAediting_349686	chr4_8203717_+	ncRNA_intronic
CAediting_349687	chr4_8204192_+	ncRNA_intronic
CAediting_349688	chr4_8204193_+	ncRNA_intronic
CAediting_349689	chr4_8204204_+	ncRNA_intronic
CAediting_349690	chr4_8204221_+	ncRNA_intronic
CAediting_349691	chr4_8204226_+	ncRNA_intronic
CAediting_349692	chr4_8204252_+	ncRNA_intronic
CAediting_349693	chr4_8204281_+	ncRNA_intronic
CAediting_349694	chr4_8204306_+	ncRNA_intronic
CAediting_349695	chr4_8204329_+	ncRNA_intronic
CAediting_349696	chr4_8204345_+	ncRNA_intronic
CAediting_349697	chr4_8204357_+	ncRNA_intronic
CAediting_349698	chr4_8204382_+	ncRNA_intronic
CAediting_349699	chr4_8204387_+	ncRNA_intronic
CAediting_349700	chr4_8204392_+	ncRNA_intronic
CAediting_349701	chr4_8204405_+	ncRNA_intronic
CAediting_349702	chr4_8225018_+	ncRNA_exonic
CAediting_349703	chr4_8236318_+	exonic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_349673	chr4_8192203_+	SINE	Alu	AluSx1
CAediting_349692	chr4_8204252_+	DNA	hAT-Ac	OldhAT1
CAediting_349693	chr4_8204281_+	DNA	hAT-Ac	OldhAT1
CAediting_349694	chr4_8204306_+	DNA	hAT-Ac	OldhAT1

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RNA A-to-I editing events in the alternative splicing sites for SH3TC1

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 ENSG00000125089.15.SH3TC1.

Correlation between RNA A-to-I editing and PSI for ENSG00000125089.15.SH3TC1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for SH3TC1

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 SH3TC1

- 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 SH3TC1

**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
CAediting_349703	chr4_8236318_+	ENSG00000125089.15	ENST00000515682	hsa-miR-3173-5p	8236314	8236320	7mer-m8	8236302	8236321	149.00	-18.91
CAediting_349703	chr4_8236318_+	ENSG00000125089.15	ENST00000515682	hsa-miR-6799-3p	8236314	8236320	7mer-m8	8236300	8236321	151.00	-26.32
CAediting_349703	chr4_8236318_+	ENSG00000125089.15	ENST00000511002	hsa-miR-3173-5p	8236314	8236320	7mer-m8	8236302	8236321	149.00	-18.91
CAediting_349703	chr4_8236318_+	ENSG00000125089.15	ENST00000511002	hsa-miR-6799-3p	8236314	8236320	7mer-m8	8236300	8236321	151.00	-26.32

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_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000502669	hsa-miR-1304-3p	8222884	8222890	7mer-m8	8222870	8222891	147	-16.37
CAediting_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000502669	hsa-miR-1304-3p	8228264	8228270	7mer-m8	8228252	8228271	146	-20.15
CAediting_393	chr1_1167164_+	ENSG00000125089.15	ENST00000502669	hsa-miR-200b-3p	8227517	8227523	7mer-m8	8227502	8227524	153	-19.07
CAediting_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000502669	hsa-miR-1304-3p	8232027	8232033	7mer-m8	8232015	8232034	141	-16.81
CAediting_980496	chr14_31014685_-	ENSG00000125089.15	ENST00000382521	hsa-miR-624-3p	8205780	8205786	7mer-m8	8205765	8205787	141	-24.83
CAediting_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000515682	hsa-miR-1304-3p	8222884	8222890	7mer-m8	8222870	8222891	147	-16.37
CAediting_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000515682	hsa-miR-1304-3p	8228264	8228270	7mer-m8	8228252	8228271	146	-20.15
CAediting_393	chr1_1167164_+	ENSG00000125089.15	ENST00000515682	hsa-miR-200b-3p	8227517	8227523	7mer-m8	8227502	8227524	153	-19.07
CAediting_846604	chr11_93733708_-	ENSG00000125089.15	ENST00000515682	hsa-miR-1304-3p	8232027	8232033	7mer-m8	8232015	8232034	141	-16.81
CAediting_77128	chr1_85133844_+	ENSG00000125089.15	ENST00000502669	hsa-miR-4423-3p	8219432	8219438	7mer-m8	8219419	8219439	145	-20.43
CAediting_77128	chr1_85133844_+	ENSG00000125089.15	ENST00000502669	hsa-miR-4423-3p	8227563	8227570	8mer-1a	8227550	8227570	150	-21.21
CAediting_396018	chr5_1062918_-	ENSG00000125089.15	ENST00000502669	hsa-miR-4635	8227724	8227730	7mer-m8	8227710	8227731	146	-14.71
CAediting_1368054	chr19_46709310_-	ENSG00000125089.15	ENST00000502669	hsa-miR-320e	8232126	8232132	7mer-m8	8232117	8232133	147	-20.7
CAediting_1368054	chr19_46709310_-	ENSG00000125089.15	ENST00000502669	hsa-miR-320e	8232060	8232066	7mer-m8	8232049	8232067	144	-19.93
CAediting_604450	chr7_133034877_-	ENSG00000125089.15	ENST00000502669	hsa-miR-3654	8231989	8231995	7mer-m8	8231978	8231996	145	-17.44
CAediting_396018	chr5_1062918_-	ENSG00000125089.15	ENST00000502669	hsa-miR-4635	8237561	8237567	7mer-m8	8237549	8237568	156	-19.04
CAediting_77128	chr1_85133844_+	ENSG00000125089.15	ENST00000382521	hsa-miR-4423-3p	8205810	8205816	7mer-m8	8205797	8205817	140	-12.9
CAediting_580943	chr7_100356700_+	ENSG00000125089.15	ENST00000382521	hsa-miR-6840-3p	8205828	8205835	8mer-1a	8205814	8205835	151	-22.42
CAediting_604450	chr7_133034877_-	ENSG00000125089.15	ENST00000382521	hsa-miR-3654	8205999	8206005	7mer-m8	8205988	8206006	153	-26.94
CAediting_1368054	chr19_46709310_-	ENSG00000125089.15	ENST00000515682	hsa-miR-320e	8212776	8212782	7mer-m8	8212766	8212783	143	-18.05
CAediting_77128	chr1_85133844_+	ENSG00000125089.15	ENST00000515682	hsa-miR-4423-3p	8219432	8219438	7mer-m8	8219419	8219439	145	-20.43
CAediting_77128	chr1_85133844_+	ENSG00000125089.15	ENST00000515682	hsa-miR-4423-3p	8227563	8227570	8mer-1a	8227550	8227570	150	-21.21
CAediting_396018	chr5_1062918_-	ENSG00000125089.15	ENST00000515682	hsa-miR-4635	8227724	8227730	7mer-m8	8227710	8227731	146	-14.71
CAediting_1368054	chr19_46709310_-	ENSG00000125089.15	ENST00000515682	hsa-miR-320e	8232126	8232132	7mer-m8	8232117	8232133	147	-20.7
CAediting_1368054	chr19_46709310_-	ENSG00000125089.15	ENST00000515682	hsa-miR-320e	8232060	8232066	7mer-m8	8232049	8232067	144	-19.93
CAediting_604450	chr7_133034877_-	ENSG00000125089.15	ENST00000515682	hsa-miR-3654	8231989	8231995	7mer-m8	8231978	8231996	145	-17.44
CAediting_396018	chr5_1062918_-	ENSG00000125089.15	ENST00000515682	hsa-miR-4635	8237561	8237567	7mer-m8	8237549	8237568	156	-19.04
CAediting_1306323	chr19_13836462_-	ENSG00000125089.15	ENST00000515682	hsa-miR-27a-3p	8240821	8240827	7mer-m8	8240804	8240828	144	-16.89
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000502669	hsa-miR-6891-5p	8227355	8227362	8mer-1a	8227344	8227362	140	-16.41
CAediting_1524209	chrX_134546392_-	ENSG00000125089.15	ENST00000502669	hsa-miR-503-5p	8227258	8227264	7mer-m8	8227245	8227265	145	-23.52
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000382521	hsa-miR-6891-5p	8206017	8206022	6mer	8206003	8206023	148	-26.49
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000515682	hsa-miR-6891-5p	8216240	8216247	8mer-1a	8216229	8216247	141	-23.14
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000515682	hsa-miR-6891-5p	8227355	8227362	8mer-1a	8227344	8227362	140	-16.41
CAediting_1524209	chrX_134546392_-	ENSG00000125089.15	ENST00000515682	hsa-miR-503-5p	8227258	8227264	7mer-m8	8227245	8227265	145	-23.52
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000515682	hsa-miR-6891-5p	8240898	8240904	7mer-m8	8240886	8240905	154	-20.25
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000507891	hsa-miR-6891-5p	8216240	8216247	8mer-1a	8216229	8216247	141	-23.14

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_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000502669	hsa-miR-4512	8228606	8228611	6mer	8228590	8228612	144	-27.72
CAediting_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000502669	hsa-miR-4512	8227183	8227189	7mer-m8	8227170	8227190	150	-27.91
CAediting_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000502669	hsa-miR-4512	8227741	8227747	7mer-m8	8227727	8227748	147	-24.45
CAediting_524911	chr7_5495852_-	ENSG00000125089.15	ENST00000502669	hsa-miR-589-3p	8227037	8227043	7mer-m8	8227021	8227044	140	-12.65
CAediting_580943	chr7_100356700_+	ENSG00000125089.15	ENST00000502669	hsa-miR-6840-3p	8227387	8227393	7mer-m8	8227375	8227394	141	-23.23
CAediting_580943	chr7_100356700_+	ENSG00000125089.15	ENST00000502669	hsa-miR-6840-3p	8227585	8227591	7mer-m8	8227571	8227592	144	-24.65
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000502669	hsa-miR-6891-5p	8227141	8227147	7mer-m8	8227130	8227148	145	-23.39
CAediting_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000515682	hsa-miR-4512	8228606	8228611	6mer	8228590	8228612	144	-27.72
CAediting_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000515682	hsa-miR-4512	8227183	8227189	7mer-m8	8227170	8227190	150	-27.91
CAediting_1054808	chr15_66496985_-	ENSG00000125089.15	ENST00000515682	hsa-miR-4512	8227741	8227747	7mer-m8	8227727	8227748	147	-24.45
CAediting_524911	chr7_5495852_-	ENSG00000125089.15	ENST00000515682	hsa-miR-589-3p	8227037	8227043	7mer-m8	8227021	8227044	140	-12.65
CAediting_580943	chr7_100356700_+	ENSG00000125089.15	ENST00000515682	hsa-miR-6840-3p	8227387	8227393	7mer-m8	8227375	8227394	141	-23.23
CAediting_580943	chr7_100356700_+	ENSG00000125089.15	ENST00000515682	hsa-miR-6840-3p	8227585	8227591	7mer-m8	8227571	8227592	144	-24.65
CAediting_468389	chr6_31355314_-	ENSG00000125089.15	ENST00000515682	hsa-miR-6891-5p	8227141	8227147	7mer-m8	8227130	8227148	145	-23.39

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for SH3TC1

- 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.
ENST00000245105.6	protein_coding
ENST00000506360.4	retained_intron
ENST00000515682.4	nonsense_mediated_decay
ENST00000508438.1	retained_intron
ENST00000502350.4	retained_intron
ENST00000502559.1	retained_intron
ENST00000508183.4	retained_intron
ENST00000511002.4	nonsense_mediated_decay

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

CAeditom_ID	ENST	Editing_Position	MFE_withoneAI	MFE_withoutAI	MFE_withmultipleAI
CAediting_349703	ENST00000245105.6	chr4_8236318_+	-2028.80	-2026.20	-2028.80
CAediting_349703	ENST00000506360.4	chr4_8236318_+	-2755.50	-2753.50	-2755.50
CAediting_349703	ENST00000515682.4	chr4_8236318_+	-2064.10	-2061.50	-2064.10
CAediting_349702	ENST00000508438.1	chr4_8225018_+	-202.60	-203.00	-202.60
CAediting_349703	ENST00000502350.4	chr4_8236318_+	-958.40	-955.30	-958.40
CAediting_349703	ENST00000502559.1	chr4_8236318_+	-1738.50	-1736.50	-1738.50
CAediting_349703	ENST00000508183.4	chr4_8236318_+	-646.70	-644.70	-646.70
CAediting_349703	ENST00000511002.4	chr4_8236318_+	-506.90	-505.50	-506.90

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Relation with ADAR for SH3TC1

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 SH3TC1

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for SH3TC1

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for SH3TC1

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 SH3TC1

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
SH3TC1	C0009402	Colorectal Carcinoma	1	CTD_human;UNIPROT
SH3TC1	C0009404	Colorectal Neoplasms	1	CTD_human

	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