MAGEB10

Summary

MAGEB10 (MAGE family member B10, HGNC:25377) is a protein-coding gene on chromosome Xp21.3, encoding Melanoma-associated antigen B10 (Q96LZ2).

This gene encodes a member of the B subfamily of the melanoma associated antigen protein family. The encoded protein is specifically expressed in testis and tumor cells.

Source: NCBI Gene 139422 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 23 total
• MANE Select transcript: NM_182506

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25377
Approved symbol	MAGEB10
Name	MAGE family member B10
Location	Xp21.3
Locus type	gene with protein product
Status	Approved
Aliases	FLJ32965
Ensembl gene	ENSG00000177689
Ensembl biotype	protein_coding
OMIM	300761
Entrez	139422

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 protein_coding

ENST00000356790, ENST00000614159

RefSeq mRNA: 1 — MANE Select: NM_182506 NM_182506

CCDS: CCDS35221

Canonical transcript exons

ENST00000356790 — 3 exons

Exon	Start	End
ENSE00001408195	27821258	27823014
ENSE00001479523	27817554	27817702
ENSE00001479524	27807990	27808036

Expression profiles

Bgee: expression breadth tissue_specific, 8 present calls, max score 89.63.

Top tissues by expression

122 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	89.63	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	76.85	silver quality
testis	UBERON:0000473	48.35	gold quality
sural nerve	UBERON:0015488	47.58	gold quality
right testis	UBERON:0004534	47.44	gold quality
left testis	UBERON:0004533	45.30	gold quality
cortical plate	UBERON:0005343	43.47	gold quality
bone marrow cell	CL:0002092	42.93	gold quality
stromal cell of endometrium	CL:0002255	40.62	silver quality
ventricular zone	UBERON:0003053	40.11	gold quality
bone marrow	UBERON:0002371	39.93	gold quality
hindlimb stylopod muscle	UBERON:0004252	38.83	gold quality
apex of heart	UBERON:0002098	38.67	silver quality
colonic epithelium	UBERON:0000397	37.20	gold quality
granulocyte	CL:0000094	36.18	gold quality
endometrium	UBERON:0001295	35.88	gold quality
urinary bladder	UBERON:0001255	35.54	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
right coronary artery	UBERON:0001625	34.76	gold quality
right adrenal gland cortex	UBERON:0035827	33.81	gold quality
right lung	UBERON:0002167	33.50	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	33.31	gold quality
leukocyte	CL:0000738	32.93	gold quality
liver	UBERON:0002107	32.93	gold quality
lymph node	UBERON:0000029	32.50	gold quality
corpus callosum	UBERON:0002336	32.27	gold quality
adrenal tissue	UBERON:0018303	31.99	gold quality
monocyte	CL:0000576	31.56	gold quality
fundus of stomach	UBERON:0001160	31.36	gold quality
left uterine tube	UBERON:0001303	31.36	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	2.79

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

14 targeting MAGEB10, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-23A-3P	99.95	74.24	3163
HSA-MIR-23B-3P	99.95	74.24	3163
HSA-MIR-23C	99.95	73.92	3192
HSA-MIR-1208	99.70	68.28	1533
HSA-MIR-216A-5P	99.50	68.02	1288
HSA-MIR-5009-3P	99.45	69.43	1341
HSA-MIR-4662A-5P	98.48	67.18	1007
HSA-MIR-6884-3P	98.05	65.32	750
HSA-MIR-1285-5P	98.01	68.71	779
HSA-MIR-3159	97.94	66.79	1098
HSA-MIR-483-3P	97.77	64.95	731
HSA-MIR-8055	97.62	66.09	1023
HSA-MIR-6760-3P	96.35	68.31	1001
HSA-MIR-6879-3P	93.93	64.00	759

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
danio_rerio	ndnl2	ENSDARG00000058212
drosophila_melanogaster	MAGE	FBGN0037481

Paralogs (37): MAGEC2 (ENSG00000046774), TRO (ENSG00000067445), MAGEB2 (ENSG00000099399), MAGED2 (ENSG00000102316), MAGEB4 (ENSG00000120289), MAGEA9 (ENSG00000123584), MAGEA10 (ENSG00000124260), MAGEA4 (ENSG00000147381), MAGED4 (ENSG00000154545), MAGEC1 (ENSG00000155495), MAGEA8 (ENSG00000156009), MAGEC3 (ENSG00000165509), MAGEB6 (ENSG00000176746), MAGEB18 (ENSG00000176774), MAGEF1 (ENSG00000177383), MAGED1 (ENSG00000179222), NDN (ENSG00000182636), MAGEB17 (ENSG00000182798), MAGEA2B (ENSG00000183305), NSMCE3 (ENSG00000185115), MAGEA11 (ENSG00000185247), MAGEE2 (ENSG00000186675), MAGED4B (ENSG00000187243), MAGEH1 (ENSG00000187601), MAGEB5 (ENSG00000188408), MAGEB16 (ENSG00000189023), MAGEA6 (ENSG00000197172), MAGEA1 (ENSG00000198681), MAGEB3 (ENSG00000198798), MAGEE1 (ENSG00000198934), MAGEA12 (ENSG00000213401), MAGEB1 (ENSG00000214107), MAGEA3 (ENSG00000221867), MAGEB6B (ENSG00000232030), MAGEL2 (ENSG00000254585), MAGEA9B (ENSG00000267978), MAGEA2 (ENSG00000268606)

Protein

Protein identifiers

Melanoma-associated antigen B10 — Q96LZ2 (reviewed: Q96LZ2)

Alternative names: MAGE-B10 antigen

All UniProt accessions (1): Q96LZ2

RefSeq proteins (1): NP_872312* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR002190	MHD_dom	Domain
IPR021072	MAGE_N	Domain
IPR037445	MAGE	Family
IPR041898	MAGE_WH1	Homologous_superfamily
IPR041899	MAGE_WH2	Homologous_superfamily

Pfam: PF01454, PF12440

UniProt features (13 total): sequence conflict 3, region of interest 3, compositionally biased region 3, sequence variant 2, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96LZ2-F1	72.28	0.34

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 4 (showing top): chrXp21, GOBP_NEGATIVE_REGULATION_OF_TRANSCRIPTION_BY_RNA_POLYMERASE_II, GOBP_NEGATIVE_REGULATION_OF_NUCLEOBASE_CONTAINING_COMPOUND_METABOLIC_PROCESS, GOBP_NEGATIVE_REGULATION_OF_RNA_BIOSYNTHETIC_PROCESS

GO Biological Process (1): negative regulation of transcription by RNA polymerase II (GO:0000122)

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (1): nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of transcription by RNA polymerase II	1
transcription by RNA polymerase II	1
negative regulation of DNA-templated transcription	1
binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

310 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
MAGEB10	XAGE5	Q8WWM1	570
MAGEB10	MRFAP1L1	Q96HT8	505
MAGEB10	IL1RAPL1	Q9NZN1	492
MAGEB10	PAGE2B	Q5JRK9	478
MAGEB10	KLF12	Q9Y4X4	474
MAGEB10	AFF2	P51816	473
MAGEB10	NEUROD2	Q15784	457
MAGEB10	PRSS55	Q6UWB4	451
MAGEB10	XAGE3	Q8WTP9	435
MAGEB10	SPATA3	Q8NHX4	417
MAGEB10	ZNF135	P52742	398
MAGEB10	ZC4H2	Q9NQZ6	356
MAGEB10	TRIM69	Q86WT6	347
MAGEB10	DDX43	Q9NXZ2	341
MAGEB10	CAMKV	Q8NCB2	337

IntAct

19 interactions, top by confidence:

A	B	Type	Score
GET3	GET1	psi-mi:“MI:0914”(association)	0.640
SUOX	MAGEB10	psi-mi:“MI:0915”(physical association)	0.560
MAGEB10	GTPBP10	psi-mi:“MI:0914”(association)	0.530
EPHA2	GOLIM4	psi-mi:“MI:0914”(association)	0.530
RAB20	CHM	psi-mi:“MI:0914”(association)	0.530
MAGEB10	NSMCE1	psi-mi:“MI:0914”(association)	0.530
ARHGAP12	MAGEB10	psi-mi:“MI:0915”(physical association)	0.400
MYC		psi-mi:“MI:0914”(association)	0.350
NUDT9	HARS2	psi-mi:“MI:0914”(association)	0.350
UBP1	TLE4	psi-mi:“MI:0914”(association)	0.350
SKA3	NIN	psi-mi:“MI:0914”(association)	0.350
SLC25A11	MAGEB10	psi-mi:“MI:0914”(association)	0.350
ZBTB48	RPLP0	psi-mi:“MI:0914”(association)	0.350
SUOX	MAGEB10	psi-mi:“MI:0915”(physical association)	0.000
MAGEB10	SUOX	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (104): MAGEB4 (Affinity Capture-MS), NSMCE1 (Affinity Capture-MS), MAGEC2 (Affinity Capture-MS), H2AFX (Affinity Capture-MS), MAGEA10 (Affinity Capture-MS), GOLGA2 (Affinity Capture-MS), C1QBP (Affinity Capture-MS), BRIX1 (Affinity Capture-MS), MRTO4 (Affinity Capture-MS), SDAD1 (Affinity Capture-MS), RPL26L1 (Affinity Capture-MS), RPL3 (Affinity Capture-MS), NOC2L (Affinity Capture-MS), STAU1 (Affinity Capture-MS), KIAA0020 (Affinity Capture-MS)

ESM2 similar proteins: A0A0J9YX57, A1A5P9, A2A368, A2A9R3, A8MXT2, B2KFW1, O15479, O15480, O15481, O15553, P0C6Y7, P10073, P17040, P25233, P43355, P43356, P43357, P43358, P43360, P43362, P43363, P43364, P43366, Q13342, Q16666, Q4R998, Q5PPP4, Q5RD14, Q6AY37, Q6PCZ4, Q8BQR7, Q8IWY8, Q8IX06, Q8N660, Q8N7X4, Q8TD90, Q96DU7, Q96LZ2, Q96M61, Q99608

Diamond homologs: A0A0J9YX57, A1A5P9, A2A368, A2A9R3, A6NCF6, A6QLI5, A8MXT2, O15479, O15480, O15481, O60732, P25233, P43355, P43356, P43357, P43358, P43360, P43361, P43362, P43363, P43364, P43365, P43366, Q12816, Q4R998, Q5PPP4, Q5RFC2, Q6AY37, Q6ITT4, Q6PCZ4, Q8BQR7, Q8N7X4, Q8TD90, Q8TD91, Q96JG8, Q96LZ2, Q96M61, Q96MG7, Q99608, Q9BE18

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

23 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	19
Likely benign	2
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

279 predictions. Top by Δscore:

Variant	Effect	Δscore
X:27821254:CCA:C	acceptor_loss	0.9800
X:27821255:CA:C	acceptor_loss	0.9800
X:27821256:A:AC	acceptor_loss	0.9800
X:27821256:A:AG	acceptor_gain	0.9800
X:27821257:G:GC	acceptor_loss	0.9800
X:27821257:G:GG	acceptor_gain	0.9800
X:27821257:GGT:G	acceptor_gain	0.9600
X:27821256:AG:A	acceptor_gain	0.9500
X:27821257:GG:G	acceptor_gain	0.9500
X:27821257:GGTC:G	acceptor_gain	0.9400
X:27821257:GGTCA:G	acceptor_gain	0.9300
X:27817703:G:GG	donor_gain	0.8700
X:27812927:GC:G	donor_gain	0.8600
X:27810216:G:A	acceptor_gain	0.8100
X:27808032:AGGAG:A	donor_loss	0.8000
X:27808035:AGGT:A	donor_loss	0.8000
X:27808036:GGTAA:G	donor_loss	0.8000
X:27808037:GT:G	donor_loss	0.8000
X:27808038:T:G	donor_loss	0.8000
X:27812772:AC:A	donor_gain	0.8000
X:27808033:GGAG:G	donor_gain	0.7900
X:27808034:GAGG:G	donor_gain	0.7900
X:27819775:GCC:G	donor_gain	0.7900
X:27808188:G:T	donor_gain	0.7700
X:27808039:AAG:A	donor_loss	0.7600
X:27818772:TG:T	donor_gain	0.7300
X:27818773:GG:G	donor_gain	0.7300
X:27820029:T:TA	acceptor_gain	0.7300
X:27812934:A:T	donor_gain	0.7000
X:27817553:G:C	acceptor_gain	0.6700

AlphaMissense

2285 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
X:27822129:T:A	W275R	0.985
X:27822129:T:C	W275R	0.985
X:27822124:T:C	F273S	0.975
X:27822177:T:C	F291L	0.975
X:27822179:T:A	F291L	0.975
X:27822179:T:G	F291L	0.975
X:27822132:G:C	G276R	0.972
X:27821796:T:C	F164L	0.971
X:27821798:T:A	F164L	0.971
X:27821798:T:G	F164L	0.971
X:27822131:G:C	W275C	0.967
X:27822131:G:T	W275C	0.967
X:27822161:G:C	K285N	0.962
X:27822161:G:T	K285N	0.962
X:27822133:G:A	G276D	0.952
X:27821803:T:C	L166P	0.950
X:27822027:T:C	F241L	0.949
X:27822029:T:A	F241L	0.949
X:27822029:T:G	F241L	0.949
X:27822183:G:C	A293P	0.944
X:27821785:T:C	L160P	0.943
X:27821681:G:C	K125N	0.941
X:27821681:G:T	K125N	0.941
X:27822123:T:C	F273L	0.941
X:27822125:C:A	F273L	0.941
X:27822125:C:G	F273L	0.941
X:27822141:G:C	A279P	0.940
X:27821976:T:A	W224R	0.939
X:27821976:T:C	W224R	0.939
X:27822172:T:A	L289H	0.939

dbSNP variants (sampled 300 via entrez): RS1000211395 (X:27822603 G>A), RS1000322499 (X:27822932 G>A), RS1000387714 (X:27814864 CTT>C,CTTT), RS1000878544 (X:27812667 G>A), RS1001330618 (X:27817914 G>A), RS1001389264 (X:27817273 T>C,G), RS1001736205 (X:27807810 A>G), RS1001997389 (X:27809916 C>T), RS1002334753 (X:27820185 C>G), RS1002346514 (X:27810289 C>T), RS1002387049 (X:27819534 G>A), RS1002767406 (X:27819448 A>G), RS1002986928 (X:27810254 G>A,C), RS1003294900 (X:27819910 G>A), RS1003411088 (X:27811708 A>C,G)

Disease associations

OMIM: gene MIM:300761 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

5 total (human), top 5 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
CGP 52608	affects binding, increases reaction	1
Benzo(a)pyrene	affects methylation	1
Valproic Acid	decreases methylation	1
8-Bromo Cyclic Adenosine Monophosphate	increases expression	1
Aflatoxin B1	decreases methylation	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.