FAM156B

Summary

FAM156B (family with sequence similarity 156 member B, HGNC:31962) is a protein-coding gene on chromosome Xp11.22, encoding Protein FAM156A/FAM156B (Q8NDB6).

Predicted to enable methylated histone binding activity. Located in nuclear envelope.

Source: NCBI Gene 727866 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 1 total
• MANE Select transcript: NM_001321178

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:31962
Approved symbol	FAM156B
Name	family with sequence similarity 156 member B
Location	Xp11.22
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000179304
Ensembl biotype	protein_coding
Entrez	727866

Gene structure

Transcript identifiers

Ensembl transcripts: 23 — 23 protein_coding

ENST00000416841, ENST00000509613, ENST00000593751, ENST00000610405, ENST00000610609, ENST00000612188, ENST00000616419, ENST00000619346, ENST00000872798, ENST00000872799, ENST00000872800, ENST00000872801, ENST00000872802, ENST00000872803, ENST00000872804, ENST00000946100, ENST00000946101, ENST00000946102, ENST00000946103, ENST00000946104, ENST00000946105, ENST00000946106, ENST00000946107

RefSeq mRNA: 10 — MANE Select: NM_001321178 NM_001099684, NM_001321178, NM_001321179, NM_001321180, NM_001321181, NM_001321182, NM_001321183, NM_001321186, NM_001321187, NM_001321188

CCDS: CCDS43957

Canonical transcript exons

ENST00000416841 — 3 exons

Exon	Start	End
ENSE00002207946	52907109	52908560
ENSE00002270563	52897330	52899541
ENSE00003734130	52900568	52900660

Expression profiles

Bgee: expression breadth ubiquitous, 133 present calls, max score 95.48.

FANTOM5 (CAGE): breadth broad, TPM avg 0.5680 / max 18.3341, expressed in 304 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
209706	0.5680	304
209705	0.0091	5

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
pituitary gland	UBERON:0000007	95.48	gold quality
adenohypophysis	UBERON:0002196	94.62	gold quality
right uterine tube	UBERON:0001302	94.39	gold quality
lower esophagus mucosa	UBERON:0035834	93.75	gold quality
placenta	UBERON:0001987	93.67	gold quality
right hemisphere of cerebellum	UBERON:0014890	93.34	gold quality
cerebellar hemisphere	UBERON:0002245	93.04	gold quality
mucosa of transverse colon	UBERON:0004991	92.97	gold quality
cerebellar cortex	UBERON:0002129	92.79	gold quality
cerebellum	UBERON:0002037	92.70	gold quality
hypothalamus	UBERON:0001898	92.15	gold quality
right adrenal gland	UBERON:0001233	92.05	gold quality
right frontal lobe	UBERON:0002810	91.75	gold quality
skin of abdomen	UBERON:0001416	91.61	gold quality
left adrenal gland cortex	UBERON:0035825	91.55	gold quality
left adrenal gland	UBERON:0001234	91.44	gold quality
skin of leg	UBERON:0001511	91.37	gold quality
spleen	UBERON:0002106	91.24	gold quality
zone of skin	UBERON:0000014	91.23	gold quality
tibial nerve	UBERON:0001323	91.23	gold quality
right adrenal gland cortex	UBERON:0035827	91.19	gold quality
subcutaneous adipose tissue	UBERON:0002190	91.09	gold quality
putamen	UBERON:0001874	90.72	gold quality
adipose tissue	UBERON:0001013	90.45	gold quality
left uterine tube	UBERON:0001303	90.43	gold quality
nucleus accumbens	UBERON:0001882	90.30	gold quality
amygdala	UBERON:0001876	90.14	gold quality
caudate nucleus	UBERON:0001873	90.12	gold quality
brain	UBERON:0000955	90.11	gold quality
anterior cingulate cortex	UBERON:0009835	90.09	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

Experiment	Marker?	Max mean expression
E-MTAB-6701	yes	45.28
E-ANND-3	yes	3.42

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

18 targeting FAM156B, 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-5002-5P	99.76	70.84	1763
HSA-MIR-5004-5P	99.68	66.63	1294
HSA-MIR-3202	99.66	67.70	2737
HSA-MIR-3685	99.62	68.83	1621
HSA-MIR-7152-5P	99.60	69.33	2094
HSA-MIR-888-3P	99.53	69.77	1057
HSA-MIR-4672	99.50	71.58	2893
HSA-MIR-7515	99.31	68.22	1795
HSA-MIR-155-3P	99.03	67.99	924
HSA-MIR-3619-5P	99.00	68.87	2308
HSA-MIR-4751	98.80	64.95	525
HSA-MIR-214-3P	98.71	68.12	2128
HSA-MIR-761	98.71	68.07	2051
HSA-MIR-9500	98.62	66.54	1845
HSA-MIR-7112-3P	97.67	68.77	948
HSA-MIR-3928-3P	97.61	66.53	1096
HSA-MIR-5681B	94.82	69.30	514
HSA-MIR-2277-3P	91.94	62.27	299

Literature-anchored findings (GeneRIF, showing 1)

• Methylation of three genes encoded by X chromosome in blood leukocytes and colorectal cancer risk. (PMID:34145793)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Vcf2	ENSMUSG00000041353
rattus_norvegicus	Vcf2	ENSRNOG00000090943

Paralogs (1): FAM156A (ENSG00000268350)

Protein

Protein identifiers

Protein FAM156A/FAM156B — Q8NDB6 (reviewed: Q8NDB6)

Alternative names: Transmembrane protein 29/29B

All UniProt accessions (4): A0A087WZE8, A0A087WZZ1, A0A087X2H2, Q8NDB6

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Membrane.

RefSeq proteins (10): NP_001093154, NP_001308107, NP_001308108, NP_001308109, NP_001308110, NP_001308111, NP_001308112, NP_001308115, NP_001308116, NP_001308117 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR029096	Dppa3	Family

Pfam: PF15549

UniProt features (13 total): sequence conflict 5, region of interest 2, compositionally biased region 2, modified residue 2, chain 1, transmembrane region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8NDB6-F1	68.68	0.18

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (2): 1, 114

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 7 (showing top): GOCC_NUCLEAR_ENVELOPE, GOCC_ORGANELLE_ENVELOPE, chrXp11, MIR5002_5P, MIR155_3P, MIR5681B, THAKAR_PBMC_INACTIVATED_INFLUENZA_AGE_21_30YO_RESPONDERS_28DY_DN

GO Biological Process (0):

GO Molecular Function (2): protein binding (GO:0005515), obsolete methylated histone binding (GO:0035064)

GO Cellular Component (2): nuclear envelope (GO:0005635), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
nucleus	1
endomembrane system	1
organelle envelope	1
cellular anatomical structure	1

Protein interactions and networks

STRING

174 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
FAM156B	RBM41	Q96IZ5	456
FAM156B	TMEM164	Q5U3C3	444
FAM156B	DYDC2	Q96IM9	380
FAM156B	NME6	O75414	370
FAM156B	PPP1R3F	Q6ZSY5	369
FAM156B	GOLGA8B	A8MQT2	358
FAM156B	GNB4	Q9HAV0	348
FAM156B	MRPS25	P82663	348
FAM156B	DEF8	Q6ZN54	348
FAM156B	GALNT16	Q8N428	348
FAM156B	RBM33	Q96EV2	348
FAM156B	CCDC14	Q49A88	348
FAM156B	TMEM106A	Q96A25	348
FAM156B	DNAAF6	Q9NQM4	336
FAM156B	GAB3	Q8WWW8	328

IntAct

21 interactions, top by confidence:

A	B	Type	Score
SAT1	FAM156B	psi-mi:“MI:0915”(physical association)	0.560
TEX11	FAM156B	psi-mi:“MI:0915”(physical association)	0.560
ATRIP	FAM156B	psi-mi:“MI:0915”(physical association)	0.560
FAM156B	TFIP11	psi-mi:“MI:0915”(physical association)	0.560
FAM156B	SAT1	psi-mi:“MI:0915”(physical association)	0.560
FAM156B	TEX11	psi-mi:“MI:0915”(physical association)	0.560
TFIP11	FAM156B	psi-mi:“MI:0915”(physical association)	0.560
FAM156B	CRACR2A	psi-mi:“MI:0915”(physical association)	0.560
GADD45G	FAM156B	psi-mi:“MI:0915”(physical association)	0.560
FAM156B	PB2	psi-mi:“MI:0915”(physical association)	0.370
MAGEA11	FAM156B	psi-mi:“MI:0915”(physical association)	0.370
CRACR2A	FAM156B	psi-mi:“MI:0915”(physical association)	0.000
GADD45G	FAM156B	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (10): FAM156A (Two-hybrid), FAM156A (Two-hybrid), TEX11 (Two-hybrid), ATRIP (Two-hybrid), FAM156A (Two-hybrid), FAM156B (Two-hybrid), FAM156A (Two-hybrid), FAM156B (Two-hybrid), FAM156A (Two-hybrid), FAM156A (Affinity Capture-RNA)

ESM2 similar proteins: A0A1B0GVQ3, A0A1W2PPK0, A0A1W2PPM1, A2A9I7, A6NCI8, A6QQS3, A7XCE8, E9PI22, E9PXT9, O15016, O91083, P09414, P0DMB1, P17923, P18804, P20879, P35965, P49750, Q0P670, Q12857, Q1RMX6, Q32LN6, Q32MG2, Q3B8N5, Q3T016, Q3V0A6, Q4JK59, Q5BI31, Q5T035, Q5ZKH6, Q642A3, Q6AXV6, Q6IMN6, Q6P1W5, Q6PEX7, Q6X4T0, Q80YD3, Q86UF4, Q8BII1, Q8C5V0

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	1
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

821 predictions. Top by Δscore:

Variant	Effect	Δscore
X:52897406:GCGC:G	donor_gain	1.0000
X:52897451:G:GT	donor_gain	1.0000
X:52897453:A:T	donor_gain	1.0000
X:52897408:GC:G	donor_gain	0.9900
X:52897410:G:GG	donor_gain	0.9900
X:52897433:A:T	donor_gain	0.9900
X:52897458:C:CG	donor_gain	0.9900
X:52907095:A:AG	acceptor_gain	0.9900
X:52907095:ACCTT:A	acceptor_gain	0.9900
X:52907096:C:G	acceptor_gain	0.9900
X:52907101:C:CA	acceptor_gain	0.9900
X:52907107:A:AG	acceptor_gain	0.9900
X:52907107:AGTCT:A	acceptor_gain	0.9900
X:52907108:G:GA	acceptor_gain	0.9900
X:52907108:GT:G	acceptor_gain	0.9900
X:52907108:GTC:G	acceptor_gain	0.9900
X:52907108:GTCT:G	acceptor_gain	0.9900
X:52907108:GTCTG:G	acceptor_gain	0.9900
X:52897428:G:GT	donor_gain	0.9800
X:52897431:G:GT	donor_gain	0.9800
X:52897437:C:T	donor_gain	0.9800
X:52897452:G:GT	donor_gain	0.9800
X:52897461:A:T	donor_gain	0.9800
X:52897540:G:GT	donor_gain	0.9800
X:52903442:TGTA:T	donor_gain	0.9800
X:52907092:A:AG	acceptor_gain	0.9800
X:52907093:T:G	acceptor_gain	0.9800
X:52907099:T:TA	acceptor_gain	0.9800
X:52907103:TTGCA:T	acceptor_loss	0.9800
X:52907104:T:A	acceptor_gain	0.9800

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS111420157 (X:52904891 C>T), RS112522760 (X:52893104 G>A), RS113224458 (X:52893628 C>A), RS1159018974 (X:52893320 A>C), RS1159076535 (X:52904629 C>T), RS1162050936 (X:52904171 GTTGTATTGTA>G,GTTGTA,GTTGTATTGTATTGTA), RS1162546474 (X:52904459 C>T), RS1163573170 (X:52893117 A>C), RS1165168452 (X:52904023 T>A,C), RS1167833482 (X:52904331 G>A), RS1167915145 (X:52893093 T>C,G), RS1171474341 (X:52904012 AGTTGGGGT>A), RS1171537449 (X:52903912 G>T), RS1172255458 (X:52904254 G>A), RS1173380565 (X:52892855 G>A)

Disease associations

OMIM: gene `` | 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

11 total (human), top 11 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
butyraldehyde	decreases expression	1
methacrylaldehyde	increases expression, affects cotreatment	1
Leflunomide	decreases expression	1
Acrolein	increases expression, affects cotreatment	1
Cadmium	increases expression, increases abundance	1
Ozone	affects cotreatment, increases expression	1
Smoke	decreases expression	1
Urethane	decreases expression	1
Cyclosporine	increases methylation	1
Cadmium Chloride	increases abundance, increases expression	1
S-Nitrosoglutathione	affects expression	1

Clinical trials (associated diseases)

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