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Editing gene: SEMA5B (CAeditome ID:54437)

Gene summary for SEMA5B

Gene summary

Gene information	Gene symbol	SEMA5B
	Gene ID	54437
	Gene name	semaphorin 5B
	Synonyms	SEMAG\|SemG
	Cytomap	3q21.1
	Type of gene	protein-coding
	Description	semaphorin-5Bsema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5B
	Modification date	20210518
	UniProtAcc	Q9P283
	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 SEMA5B

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: ENSG00000082684.13

RNA A-to-I editing events in Cancer.

CAediting_304197(122910978, -), CAediting_304198(122916498, -), CAediting_304199(122927066, -), CAediting_304200(122932995, -), CAediting_304201(122933970, -), CAediting_304202(122934179, -), CAediting_304203(122934180, -), CAediting_304204(122934220, -), CAediting_304205(122934221, -), CAediting_304206(122934239, -), CAediting_304207(122934741, -), CAediting_304208(122934751, -), CAediting_304209(122934759, -), CAediting_304210(122934771, -), CAediting_304211(122934781, -), CAediting_304212(122934798, -), CAediting_304213(122934799, -), CAediting_304214(122934828, -), CAediting_304215(122934835, -), CAediting_304216(122934843, -), CAediting_304217(122935725, -), CAediting_304218(122935782, -), CAediting_304219(122935787, -), CAediting_304220(122935788, -), CAediting_304221(122935831, -), CAediting_304222(122935832, -), CAediting_304223(122935943, -), CAediting_304224(122935944, -),

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RNA editing positional annotations for SEMA5B 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_304197	chr3_122910978_-	exonic
CAediting_304198	chr3_122916498_-	intronic
CAediting_304199	chr3_122927066_-	ncRNA_exonic
CAediting_304200	chr3_122932995_-	intronic
CAediting_304201	chr3_122933970_-	intronic
CAediting_304202	chr3_122934179_-	intronic
CAediting_304203	chr3_122934180_-	intronic
CAediting_304204	chr3_122934220_-	intronic
CAediting_304205	chr3_122934221_-	intronic
CAediting_304206	chr3_122934239_-	intronic
CAediting_304207	chr3_122934741_-	intronic
CAediting_304208	chr3_122934751_-	intronic
CAediting_304209	chr3_122934759_-	intronic
CAediting_304210	chr3_122934771_-	intronic
CAediting_304211	chr3_122934781_-	intronic
CAediting_304212	chr3_122934798_-	intronic
CAediting_304213	chr3_122934799_-	intronic
CAediting_304214	chr3_122934828_-	intronic
CAediting_304215	chr3_122934835_-	intronic
CAediting_304216	chr3_122934843_-	intronic
CAediting_304217	chr3_122935725_-	intronic
CAediting_304218	chr3_122935782_-	intronic
CAediting_304219	chr3_122935787_-	intronic
CAediting_304220	chr3_122935788_-	intronic
CAediting_304221	chr3_122935831_-	intronic
CAediting_304222	chr3_122935832_-	intronic
CAediting_304223	chr3_122935943_-	intronic
CAediting_304224	chr3_122935944_-	intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_304198	chr3_122916498_-	DNA	hAT-Charlie	MER5B
CAediting_304199	chr3_122927066_-	DNA	TcMar-Mariner	MADE1
CAediting_304200	chr3_122932995_-	SINE	Alu	AluJr
CAediting_304201	chr3_122933970_-	SINE	Alu	AluSx
CAediting_304202	chr3_122934179_-	SINE	Alu	AluSx
CAediting_304203	chr3_122934180_-	SINE	Alu	AluSx
CAediting_304207	chr3_122934741_-	SINE	Alu	AluJo
CAediting_304208	chr3_122934751_-	SINE	Alu	AluJo
CAediting_304209	chr3_122934759_-	SINE	Alu	AluJo
CAediting_304210	chr3_122934771_-	SINE	Alu	AluJo
CAediting_304211	chr3_122934781_-	SINE	Alu	AluJo
CAediting_304212	chr3_122934798_-	SINE	Alu	AluJo
CAediting_304213	chr3_122934799_-	SINE	Alu	AluJo
CAediting_304214	chr3_122934828_-	SINE	Alu	AluJo
CAediting_304215	chr3_122934835_-	SINE	Alu	AluJo
CAediting_304216	chr3_122934843_-	SINE	Alu	AluJo
CAediting_304217	chr3_122935725_-	SINE	Alu	AluSx1
CAediting_304218	chr3_122935782_-	SINE	Alu	AluSx1
CAediting_304219	chr3_122935787_-	SINE	Alu	AluSx1
CAediting_304220	chr3_122935788_-	SINE	Alu	AluSx1
CAediting_304221	chr3_122935831_-	SINE	Alu	AluSx1
CAediting_304222	chr3_122935832_-	SINE	Alu	AluSx1
CAediting_304223	chr3_122935943_-	SINE	Alu	AluSx1
CAediting_304224	chr3_122935944_-	SINE	Alu	AluSx1

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RNA A-to-I editing events in the alternative splicing sites for SEMA5B

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 ENSG00000082684.13.SEMA5B.

Correlation between RNA A-to-I editing and PSI for ENSG00000082684.13.SEMA5B.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for SEMA5B

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 SEMA5B

- 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 SEMA5B

**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_+	ENSG00000082684.13	ENST00000451055	hsa-miR-605-3p	122909457	122909464	8mer-1a	122909457	122909479	146	-19.92
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000616742	hsa-miR-605-3p	122909457	122909464	8mer-1a	122909457	122909479	146	-19.92
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000195173	hsa-miR-605-3p	122909457	122909464	8mer-1a	122909457	122909479	146	-19.92
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000451541	hsa-miR-605-3p	122909457	122909464	8mer-1a	122909457	122909479	146	-19.92
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000475244	hsa-miR-605-3p	122909457	122909464	8mer-1a	122909457	122909479	146	-19.92
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000451055	hsa-miR-548aa	122909953	122909960	8mer-1a	122909953	122909978	147	-17.05
CAediting_1160181	chr17_7017644_-	ENSG00000082684.13	ENST00000451055	hsa-miR-195-3p	122909232	122909237	6mer	122909231	122909252	144	-19.57
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000451055	hsa-miR-6869-5p	122909560	122909566	7mer-m8	122909559	122909580	142	-15.01
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000616742	hsa-miR-548aa	122909953	122909960	8mer-1a	122909953	122909978	147	-17.05
CAediting_1160181	chr17_7017644_-	ENSG00000082684.13	ENST00000616742	hsa-miR-195-3p	122909232	122909237	6mer	122909231	122909252	144	-19.57
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000616742	hsa-miR-6869-5p	122909560	122909566	7mer-m8	122909559	122909580	142	-15.01
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000195173	hsa-miR-548aa	122909953	122909960	8mer-1a	122909953	122909978	147	-17.05
CAediting_1160181	chr17_7017644_-	ENSG00000082684.13	ENST00000195173	hsa-miR-195-3p	122909232	122909237	6mer	122909231	122909252	144	-19.57
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000195173	hsa-miR-6869-5p	122909560	122909566	7mer-m8	122909559	122909580	142	-15.01
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000451541	hsa-miR-548aa	122909953	122909960	8mer-1a	122909953	122909978	147	-17.05
CAediting_1160181	chr17_7017644_-	ENSG00000082684.13	ENST00000451541	hsa-miR-195-3p	122909232	122909237	6mer	122909231	122909252	144	-19.57
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000451541	hsa-miR-6869-5p	122909560	122909566	7mer-m8	122909559	122909580	142	-15.01
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000475244	hsa-miR-548aa	122909953	122909960	8mer-1a	122909953	122909978	147	-17.05
CAediting_1160181	chr17_7017644_-	ENSG00000082684.13	ENST00000475244	hsa-miR-195-3p	122909232	122909237	6mer	122909231	122909252	144	-19.57
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000475244	hsa-miR-6869-5p	122910251	122910257	7mer-m8	122910250	122910271	144	-18.08
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000475244	hsa-miR-6869-5p	122909560	122909566	7mer-m8	122909559	122909580	142	-15.01
CAediting_1399425	chr20_1392958_-	ENSG00000082684.13	ENST00000475244	hsa-miR-6869-5p	122910211	122910218	8mer-1a	122910211	122910232	147	-19.03

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_604450	chr7_133034877_-	ENSG00000082684.13	ENST00000451055	hsa-miR-3654	122909927	122909933	7mer-m8	122909926	122909944	146	-18.3
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000451055	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_1229415	chr17_67471547_+	ENSG00000082684.13	ENST00000451055	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000451055	hsa-miR-605-3p	122910107	122910114	8mer-1a	122910107	122910128	141	-14.69
CAediting_604450	chr7_133034877_-	ENSG00000082684.13	ENST00000616742	hsa-miR-3654	122909927	122909933	7mer-m8	122909926	122909944	146	-18.3
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000616742	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_1229415	chr17_67471547_+	ENSG00000082684.13	ENST00000616742	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000616742	hsa-miR-605-3p	122910107	122910114	8mer-1a	122910107	122910128	141	-14.69
CAediting_604450	chr7_133034877_-	ENSG00000082684.13	ENST00000195173	hsa-miR-3654	122909927	122909933	7mer-m8	122909926	122909944	146	-18.3
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000195173	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_1229415	chr17_67471547_+	ENSG00000082684.13	ENST00000195173	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000195173	hsa-miR-605-3p	122910107	122910114	8mer-1a	122910107	122910128	141	-14.69
CAediting_604450	chr7_133034877_-	ENSG00000082684.13	ENST00000451541	hsa-miR-3654	122909927	122909933	7mer-m8	122909926	122909944	146	-18.3
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000451541	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_1229415	chr17_67471547_+	ENSG00000082684.13	ENST00000451541	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000451541	hsa-miR-605-3p	122910107	122910114	8mer-1a	122910107	122910128	141	-14.69
CAediting_604450	chr7_133034877_-	ENSG00000082684.13	ENST00000475244	hsa-miR-3654	122909927	122909933	7mer-m8	122909926	122909944	146	-18.3
CAediting_1229413	chr17_67471544_+	ENSG00000082684.13	ENST00000475244	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_1229415	chr17_67471547_+	ENSG00000082684.13	ENST00000475244	hsa-miR-548aa	122910059	122910065	7mer-m8	122910058	122910081	155	-11.39
CAediting_748296	chr10_51299626_+	ENSG00000082684.13	ENST00000475244	hsa-miR-605-3p	122910107	122910114	8mer-1a	122910107	122910128	141	-14.69

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for SEMA5B

- 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.
ENST00000195173.7	protein_coding
ENST00000357599.6	protein_coding
ENST00000393583.5	protein_coding
ENST00000451055.5	protein_coding
ENST00000451541.4	protein_coding
ENST00000475244.4	nonsense_mediated_decay
ENST00000616742.3	protein_coding

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_304197	ENST00000195173.7	chr3_122910978_-	-2009.40	-2002.80	-2009.40
CAediting_304197	ENST00000357599.6	chr3_122910978_-	-2140.70	-2134.10	-2140.70
CAediting_304197	ENST00000393583.5	chr3_122910978_-	-1750.40	-1743.80	-1750.40
CAediting_304197	ENST00000451055.5	chr3_122910978_-	-2006.00	-1999.40	-2006.00
CAediting_304197	ENST00000451541.4	chr3_122910978_-	-585.40	-578.80	-585.40
CAediting_304197	ENST00000475244.4	chr3_122910978_-	-2019.80	-2013.20	-2019.80
CAediting_304197	ENST00000616742.3	chr3_122910978_-	-2179.70	-2173.10	-2179.70

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Relation with ADAR for SEMA5B

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.)
KIRC	CAediting_304221	chr3_122935831_-	0.00436633831982656	0.369002597570072	.	.	.	.
KIRC	CAediting_304222	chr3_122935832_-	0.0199047535931888	0.305015262646256	.	.	.	.

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Relation with cancer stages for SEMA5B

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for SEMA5B

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for SEMA5B

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 SEMA5B

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