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Editing gene: FAM53C (CAeditome ID:51307)

Gene summary for FAM53C

Gene summary

Gene information	Gene symbol	FAM53C
	Gene ID	51307
	Gene name	family with sequence similarity 53 member C
	Synonyms	C5orf6
	Cytomap	5q31.2
	Type of gene	protein-coding
	Description	protein FAM53Cputative nuclear protein
	Modification date	20210518
	UniProtAcc	Q9NYF3
	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 FAM53C

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: ENSG00000120709.9

RNA A-to-I editing events in Cancer.

CAediting_432039(138342623, +), CAediting_432040(138342752, +), CAediting_432041(138343354, +), CAediting_432042(138343490, +), CAediting_432043(138343528, +), CAediting_432044(138344951, +),

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RNA editing positional annotations for FAM53C 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_432039	chr5_138342623_+	ncRNA_exonic
CAediting_432040	chr5_138342752_+	ncRNA_exonic
CAediting_432041	chr5_138343354_+	ncRNA_intronic
CAediting_432042	chr5_138343490_+	ncRNA_intronic
CAediting_432043	chr5_138343528_+	ncRNA_intronic
CAediting_432044	chr5_138344951_+	exonic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_432039	chr5_138342623_+	SINE	Alu	AluSp
CAediting_432040	chr5_138342752_+	SINE	Alu	AluSg
CAediting_432041	chr5_138343354_+	SINE	Alu	AluSx1
CAediting_432042	chr5_138343490_+	SINE	Alu	AluSx1
CAediting_432043	chr5_138343528_+	SINE	Alu	AluSx1

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RNA A-to-I editing events in the alternative splicing sites for FAM53C

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 ENSG00000120709.9.FAM53C.

Correlation between RNA A-to-I editing and PSI for ENSG00000120709.9.FAM53C.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for FAM53C

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 FAM53C

- 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 FAM53C

**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_748296	chr10_51299626_+	ENSG00000120709.9	ENST00000239906	hsa-miR-605-3p	138347795	138347801	7mer-m8	138347782	138347802	145	-18.89
CAediting_442554	chr5_154685830_+	ENSG00000120709.9	ENST00000513056	hsa-miR-1303	138346724	138346730	7mer-m8	138346710	138346731	168	-25.53
CAediting_1229413	chr17_67471544_+	ENSG00000120709.9	ENST00000239906	hsa-miR-548aa	138348807	138348814	8mer-1a	138348785	138348814	146	-14.22
CAediting_1229413	chr17_67471544_+	ENSG00000120709.9	ENST00000239906	hsa-miR-548aa	138349009	138349015	7mer-m8	138348992	138349016	144	-7.8
CAediting_1368054	chr19_46709310_-	ENSG00000120709.9	ENST00000239906	hsa-miR-320e	138347264	138347270	7mer-m8	138347251	138347271	149	-20.64
CAediting_77128	chr1_85133844_+	ENSG00000120709.9	ENST00000239906	hsa-miR-4423-3p	138349498	138349504	7mer-m8	138349482	138349505	141	-15.44
CAediting_468389	chr6_31355314_-	ENSG00000120709.9	ENST00000239906	hsa-miR-6891-5p	138348634	138348640	7mer-m8	138348623	138348641	146	-21.74
CAediting_468389	chr6_31355314_-	ENSG00000120709.9	ENST00000239906	hsa-miR-6891-5p	138347347	138347354	8mer-1a	138347336	138347354	145	-20.5
CAediting_468389	chr6_31355314_-	ENSG00000120709.9	ENST00000239906	hsa-miR-6891-5p	138347864	138347869	6mer	138347853	138347870	147	-28.48

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_580943	chr7_100356700_+	ENSG00000120709.9	ENST00000513056	hsa-miR-6840-3p	138346974	138346980	7mer-m8	138346960	138346981	142	-18.34
CAediting_1368054	chr19_46709310_-	ENSG00000120709.9	ENST00000239906	hsa-miR-320e	138348923	138348929	7mer-m8	138348913	138348930	140	-11.09
CAediting_688081	chr9_63819627_+	ENSG00000120709.9	ENST00000239906	hsa-miR-4477b	138347442	138347448	7mer-m8	138347427	138347449	154	-10.67
CAediting_1351755	chr19_40282625_-	ENSG00000120709.9	ENST00000239906	hsa-miR-641	138348667	138348673	7mer-m8	138348651	138348674	150	-22.17

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for FAM53C

- 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.
ENST00000239906.8	protein_coding
ENST00000434981.5	protein_coding
ENST00000505136.1	processed_transcript
ENST00000505768.1	processed_transcript
ENST00000507506.4	processed_transcript
ENST00000511024.4	retained_intron
ENST00000511276.1	protein_coding
ENST00000512180.4	processed_transcript

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_432044	ENST00000239906.8	chr5_138344951_+	-1696.60	-1693.60	-1696.60
CAediting_432044	ENST00000434981.5	chr5_138344951_+	-679.10	-679.50	-679.10
CAediting_432044	ENST00000505136.1	chr5_138344951_+	-268.50	-263.60	-268.50
CAediting_432044	ENST00000505768.1	chr5_138344951_+	-327.90	-327.10	-327.90
CAediting_432044	ENST00000507506.4	chr5_138344951_+	-401.00	-400.00	-401.00
CAediting_432039	ENST00000511024.4	chr5_138342623_+	-598.00	-599.10	-598.80
CAediting_432040	ENST00000511024.4	chr5_138342752_+	-599.70	-599.10	-598.80
CAediting_432044	ENST00000511276.1	chr5_138344951_+	-253.50	-253.20	-253.50
CAediting_432044	ENST00000512180.4	chr5_138344951_+	-198.10	-191.50	-198.10

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Relation with ADAR for FAM53C

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 FAM53C

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for FAM53C

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for FAM53C

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 FAM53C

Diseases associated with this gene.
(DisGeNet 7.0)

Gene

Disease ID

Disease name

# pubmeds

Source

	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