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Editing gene: LMAN1 (CAeditome ID:3998)

Gene summary for LMAN1

Gene summary

Gene information	Gene symbol	LMAN1
	Gene ID	3998
	Gene name	lectin, mannose binding 1
	Synonyms	ERGIC-53\|ERGIC53\|F5F8D\|FMFD1\|MCFD1\|MR60\|gp58
	Cytomap	18q21.32
	Type of gene	protein-coding
	Description	protein ERGIC-53ER-Golgi intermediate compartment 53 kDa proteinendoplasmic reticulum-golgi intermediate compartment protein 53intracellular mannose-specific lectin MR60
	Modification date	20210518
	UniProtAcc	P49257
	Context

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

Gene	GO ID	GO term	PubMed ID
LMAN1	GO:0005783	Protein ERGIC-53	19401338
LMAN1	GO:0005793	Protein ERGIC-53	15308636
LMAN1	GO:0005793	Protein ERGIC-53	21525244

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RNA A-to-I events for LMAN1

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: ENSG00000074695.5

RNA A-to-I editing events in Cancer.

CAediting_1266809(59329710, -), CAediting_1266810(59329711, -), CAediting_1266811(59329742, -), CAediting_1266812(59329754, -), CAediting_1266813(59329919, -), CAediting_1266814(59329953, -), CAediting_1266815(59346286, -), CAediting_1266816(59346385, -), CAediting_1266817(59346442, -), CAediting_1266818(59346497, -), CAediting_1266819(59346531, -), CAediting_1266820(59346550, -), CAediting_1266821(59346555, -), CAediting_1266822(59346594, -), CAediting_1266823(59346688, -), CAediting_1266824(59346694, -), CAediting_1266825(59346696, -), CAediting_1266826(59346702, -), CAediting_1266827(59346708, -), CAediting_1266828(59346747, -),

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RNA editing positional annotations for LMAN1 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_1266809	chr18_59329710_-	UTR3
CAediting_1266810	chr18_59329711_-	UTR3
CAediting_1266811	chr18_59329742_-	UTR3
CAediting_1266812	chr18_59329754_-	UTR3
CAediting_1266813	chr18_59329919_-	UTR3
CAediting_1266814	chr18_59329953_-	UTR3
CAediting_1266815	chr18_59346286_-	ncRNA_intronic
CAediting_1266816	chr18_59346385_-	ncRNA_intronic
CAediting_1266817	chr18_59346442_-	ncRNA_intronic
CAediting_1266818	chr18_59346497_-	ncRNA_intronic
CAediting_1266819	chr18_59346531_-	ncRNA_intronic
CAediting_1266820	chr18_59346550_-	ncRNA_intronic
CAediting_1266821	chr18_59346555_-	ncRNA_intronic
CAediting_1266822	chr18_59346594_-	ncRNA_intronic
CAediting_1266823	chr18_59346688_-	ncRNA_intronic
CAediting_1266824	chr18_59346694_-	ncRNA_intronic
CAediting_1266825	chr18_59346696_-	ncRNA_intronic
CAediting_1266826	chr18_59346702_-	ncRNA_intronic
CAediting_1266827	chr18_59346708_-	ncRNA_intronic
CAediting_1266828	chr18_59346747_-	ncRNA_intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_1266815	chr18_59346286_-	SINE	Alu	AluSx1
CAediting_1266816	chr18_59346385_-	SINE	Alu	AluSx1
CAediting_1266817	chr18_59346442_-	SINE	Alu	AluSx1
CAediting_1266818	chr18_59346497_-	SINE	Alu	AluSx1
CAediting_1266819	chr18_59346531_-	SINE	Alu	AluSx
CAediting_1266820	chr18_59346550_-	SINE	Alu	AluSx
CAediting_1266821	chr18_59346555_-	SINE	Alu	AluSx
CAediting_1266822	chr18_59346594_-	SINE	Alu	AluSx
CAediting_1266823	chr18_59346688_-	SINE	Alu	AluSx
CAediting_1266824	chr18_59346694_-	SINE	Alu	AluSx
CAediting_1266825	chr18_59346696_-	SINE	Alu	AluSx
CAediting_1266826	chr18_59346702_-	SINE	Alu	AluSx
CAediting_1266827	chr18_59346708_-	SINE	Alu	AluSx
CAediting_1266828	chr18_59346747_-	SINE	Alu	AluSx

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RNA A-to-I editing events in the alternative splicing sites for LMAN1

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 ENSG00000074695.5.LMAN1.

Correlation between RNA A-to-I editing and PSI for ENSG00000074695.5.LMAN1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for LMAN1

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.

KIRC.CAediting_1266809.ENSG00000074695.LMAN1.png
Soverview

KIRC.CAediting_1266814.ENSG00000074695.LMAN1.png
Soverview

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Protein coding region RNA A-to-I editings for LMAN1

- 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 LMAN1

**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_1266810	chr18_59329711_-	ENSG00000074695.5	ENST00000251047	hsa-miR-11399	59329709	59329716	8mer-1a	59329709	59329730	152.00	-17.98
CAediting_1266810	chr18_59329711_-	ENSG00000074695.5	ENST00000251047	hsa-miR-205-3p	59329707	59329713	7mer-m8	59329706	59329725	142.00	-17.04
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-1915-3p	59329752	59329758	7mer-m8	59329751	59329770	148.00	-19.06
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-4270	59329754	59329760	7mer-m8	59329753	59329772	152.00	-21.56
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-4441	59329754	59329760	7mer-m8	59329753	59329769	145.00	-19.38
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-4482-5p	59329751	59329756	6mer	59329750	59329771	140.00	-25.12
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-6754-5p	59329754	59329760	7mer-m8	59329753	59329774	157.00	-31.17
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-6764-5p	59329752	59329758	7mer-m8	59329751	59329774	143.00	-21.77
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-7113-5p	59329753	59329759	7mer-m8	59329752	59329772	147.00	-20.93
CAediting_1266813	chr18_59329919_-	ENSG00000074695.5	ENST00000251047	hsa-miR-371b-5p	59329916	59329923	8mer-1a	59329916	59329937	140.00	-9.80
CAediting_1266813	chr18_59329919_-	ENSG00000074695.5	ENST00000251047	hsa-miR-373-5p	59329916	59329923	8mer-1a	59329916	59329937	150.00	-13.50
CAediting_1266813	chr18_59329919_-	ENSG00000074695.5	ENST00000251047	hsa-miR-4698	59329918	59329925	8mer-1a	59329918	59329941	150.00	-15.43
CAediting_1266813	chr18_59329919_-	ENSG00000074695.5	ENST00000251047	hsa-miR-513c-5p	59329916	59329921	6mer	59329915	59329933	144.00	-18.51
CAediting_1266813	chr18_59329919_-	ENSG00000074695.5	ENST00000251047	hsa-miR-616-5p	59329916	59329923	8mer-1a	59329916	59329939	147.00	-11.03
CAediting_1266814	chr18_59329953_-	ENSG00000074695.5	ENST00000251047	hsa-miR-1295b-5p	59329949	59329956	8mer-1a	59329949	59329971	145.00	-15.41
CAediting_1266814	chr18_59329953_-	ENSG00000074695.5	ENST00000251047	hsa-miR-1912-3p	59329949	59329956	8mer-1a	59329949	59329971	158.00	-20.88

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
CAediting_1266812	chr18_59329754_-	ENSG00000074695.5	ENST00000251047	hsa-miR-3162-5p	59329754	59329760	7mer-m8	59329753	59329778	144	-18.61

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_+	ENSG00000074695.5	ENST00000251047	hsa-miR-605-3p	59330732	59330739	8mer-1a	59330732	59330751	148	-13.04
CAediting_1229413	chr17_67471544_+	ENSG00000074695.5	ENST00000251047	hsa-miR-548aa	59328691	59328698	8mer-1a	59328691	59328715	140	-12.14
CAediting_1229415	chr17_67471547_+	ENSG00000074695.5	ENST00000251047	hsa-miR-548aa	59328373	59328379	7mer-m8	59328372	59328396	142	-12.53
CAediting_1229415	chr17_67471547_+	ENSG00000074695.5	ENST00000251047	hsa-miR-548aa	59330408	59330414	7mer-m8	59330407	59330437	144	-17.97
CAediting_1160181	chr17_7017644_-	ENSG00000074695.5	ENST00000251047	hsa-miR-195-3p	59330964	59330971	8mer-1a	59330964	59330987	141	-7.84
CAediting_442554	chr5_154685830_+	ENSG00000074695.5	ENST00000251047	hsa-miR-1303	59330774	59330780	7mer-m8	59330773	59330796	150	-20.43
CAediting_414656	chr5_72878640_+	ENSG00000074695.5	ENST00000251047	hsa-miR-4804-3p	59328333	59328339	7mer-m8	59328332	59328352	152	-15.11
CAediting_524911	chr7_5495852_-	ENSG00000074695.5	ENST00000251047	hsa-miR-589-3p	59329061	59329067	7mer-m8	59329060	59329083	151	-18.58
CAediting_1524209	chrX_134546392_-	ENSG00000074695.5	ENST00000251047	hsa-miR-503-5p	59329868	59329873	6mer	59329867	59329890	147	-21.22

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_1160181	chr17_7017644_-	ENSG00000074695.5	ENST00000251047	hsa-miR-195-3p	59330839	59330846	8mer-1a	59330839	59330861	151	-13.72
CAediting_1160181	chr17_7017644_-	ENSG00000074695.5	ENST00000251047	hsa-miR-195-3p	59330769	59330775	7mer-m8	59330768	59330789	150	-11.22
CAediting_393	chr1_1167164_+	ENSG00000074695.5	ENST00000251047	hsa-miR-200b-3p	59329354	59329361	8mer-1a	59329354	59329377	142	-12.89
CAediting_393	chr1_1167164_+	ENSG00000074695.5	ENST00000251047	hsa-miR-200b-3p	59328387	59328393	7mer-m8	59328386	59328413	154	-15.61
CAediting_117844	chr1_162342605_+	ENSG00000074695.5	ENST00000251047	hsa-miR-556-3p	59330553	59330559	7mer-m8	59330552	59330573	145	-9.45
CAediting_228905	chr2_188297554_+	ENSG00000074695.5	ENST00000251047	hsa-miR-561-3p	59328797	59328804	8mer-1a	59328797	59328819	155	-8.26
CAediting_748296	chr10_51299626_+	ENSG00000074695.5	ENST00000251047	hsa-miR-605-3p	59329864	59329871	8mer-1a	59329864	59329884	152	-14.61
CAediting_980496	chr14_31014685_-	ENSG00000074695.5	ENST00000251047	hsa-miR-624-3p	59330438	59330444	7mer-m8	59330437	59330457	147	-15.32

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for LMAN1

- 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 LMAN1

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.)
BRCA	CAediting_1266809	chr18_59329710_-	0.0379148247352084	0.176275534976622	.	.	.	.
LIHC	CAediting_1266809	chr18_59329710_-	1.45854940594029e-06	0.387619134398297	.	.	.	.
LUAD	CAediting_1266809	chr18_59329710_-	1.38696319347638e-08	0.642367252371808	.	.	.	.
KIRC	CAediting_1266809	chr18_59329710_-	0.00897170395541899	0.294053935017882	.	.	.	.
LIHC	CAediting_1266810	chr18_59329711_-	0.00238308540963203	0.367756081103205	.	.	.	.
BLCA	CAediting_1266814	chr18_59329953_-	0.0128054892240839	0.257231023590618	.	.	.	.
LGG	CAediting_1266814	chr18_59329953_-	0.000129243605979879	0.410250754556993	.	.	.	.
BRCA	CAediting_1266814	chr18_59329953_-	5.37340458178955e-23	0.456368898114791	.	.	.	.
LIHC	CAediting_1266814	chr18_59329953_-	2.32991839783882e-09	0.376411003389879	.	.	.	.
CESC	CAediting_1266814	chr18_59329953_-	0.00199328044603946	0.344780430292791	.	.	0.0104268898311285	0.288478461241553
LUAD	CAediting_1266814	chr18_59329953_-	7.58762032169162e-15	0.455035465435123	.	.	.	.
LUSC	CAediting_1266814	chr18_59329953_-	9.64822497437386e-07	0.48730975071171	.	.	.	.
STAD	CAediting_1266814	chr18_59329953_-	0.000153446994452101	0.392798064551161	.	.	.	.
KIRC	CAediting_1266814	chr18_59329953_-	4.2184578703083e-09	0.321449218558424	.	.	.	.
OV	CAediting_1266814	chr18_59329953_-	0.000118040093958787	0.317503646476497	.	.	.	.
SKCM	CAediting_1266814	chr18_59329953_-	0.00447992587606624	0.340614779443403	.	.	.	.
SARC	CAediting_1266814	chr18_59329953_-	0.00306135993632742	0.406689216848964	.	.	.	.

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Relation with cancer stages for LMAN1

Correlation between Cancer stages and RNA editing frequency

Cancer	Stage_type	CAeditomID	position	P-val	Coeff.
HNSC	clinical_stage	CAediting_1266814	chr18_59329953_-	0.00321403745178102	0.284971834399007

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Relation with survival for LMAN1

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for LMAN1

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
LMAN1	P49257	DB13999	Moroctocog alfa	Protein ERGIC-53	BiotechDrug	approved
LMAN1	P49257	DB00025	Antihemophilic factor, human recombinant	Protein ERGIC-53	BiotechDrug	approved\|investigational
LMAN1	P49257	DB13998	Lonoctocog alfa	Protein ERGIC-53	BiotechDrug	approved\|investigational

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RelatedDiseases for LMAN1

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
LMAN1	C4551981	Familial Multiple Coagulation Factor Deficiency I	9	CLINGEN;CTD_human;GENOMICS_ENGLAND;UNIPROT
LMAN1	C1856883	FACTOR V AND FACTOR VIII, COMBINED DEFICIENCY OF	2	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