FAM32A

Summary

FAM32A (family with sequence similarity 32 member A, HGNC:24563) is a protein-coding gene on chromosome 19p13.11, encoding Protein FAM32A (Q9Y421). Isoform 1, but not isoform 2 or isoform 3, may induce G2 arrest and apoptosis. It is a selective cancer dependency (DepMap: 80.0% of cell lines).

Enables RNA binding activity. Predicted to be involved in apoptotic process. Located in nucleolus and nucleoplasm.

Source: NCBI Gene 26017 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 18 total
• Cancer dependency (DepMap): dependent in 80.0% of screened cell lines
• MANE Select transcript: NM_014077

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:24563
Approved symbol	FAM32A
Name	family with sequence similarity 32 member A
Location	19p13.11
Locus type	gene with protein product
Status	Approved
Aliases	DKFZP586O0120, OTAG-12
Ensembl gene	ENSG00000105058
Ensembl biotype	protein_coding
OMIM	614554
Entrez	26017

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 5 protein_coding, 1 nonsense_mediated_decay

ENST00000263384, ENST00000585831, ENST00000587351, ENST00000588367, ENST00000589852, ENST00000921004

RefSeq mRNA: 1 — MANE Select: NM_014077 NM_014077

CCDS: CCDS12341

Canonical transcript exons

ENST00000263384 — 4 exons

Exon	Start	End
ENSE00000873431	16190887	16192046
ENSE00001131027	16185624	16185765
ENSE00002794630	16185410	16185516
ENSE00003536196	16190520	16190573

Expression profiles

Bgee: expression breadth ubiquitous, 300 present calls, max score 97.51.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 114.6849 / max 1324.0698, expressed in 1826 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
174389	114.6849	1826

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cortical plate	UBERON:0005343	97.51	gold quality
granulocyte	CL:0000094	97.18	gold quality
monocyte	CL:0000576	96.90	gold quality
leukocyte	CL:0000738	96.87	gold quality
mononuclear cell	CL:0000842	96.87	gold quality
ganglionic eminence	UBERON:0004023	96.74	gold quality
mucosa of transverse colon	UBERON:0004991	96.42	gold quality
gall bladder	UBERON:0002110	96.07	gold quality
left coronary artery	UBERON:0001626	96.06	gold quality
popliteal artery	UBERON:0002250	95.90	gold quality
tibial artery	UBERON:0007610	95.89	gold quality
descending thoracic aorta	UBERON:0002345	95.86	gold quality
coronary artery	UBERON:0001621	95.84	gold quality
right coronary artery	UBERON:0001625	95.82	gold quality
muscle layer of sigmoid colon	UBERON:0035805	95.81	gold quality
lower esophagus	UBERON:0013473	95.79	gold quality
lower esophagus muscularis layer	UBERON:0035833	95.79	gold quality
skin of leg	UBERON:0001511	95.75	gold quality
right adrenal gland cortex	UBERON:0035827	95.73	gold quality
aorta	UBERON:0000947	95.71	gold quality
transverse colon	UBERON:0001157	95.71	gold quality
body of stomach	UBERON:0001161	95.71	gold quality
left adrenal gland	UBERON:0001234	95.68	gold quality
left adrenal gland cortex	UBERON:0035825	95.58	gold quality
right adrenal gland	UBERON:0001233	95.57	gold quality
rectum	UBERON:0001052	95.56	gold quality
small intestine Peyer’s patch	UBERON:0003454	95.52	gold quality
thoracic aorta	UBERON:0001515	95.50	gold quality
endometrium epithelium	UBERON:0004811	95.47	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	95.44	gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	11.45
E-MTAB-6386	no	382.16
E-HCAD-31	no	2.53

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

26 targeting FAM32A, 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-8485	100.00	77.57	4731
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-570-3P	99.96	72.41	4910
HSA-MIR-6768-5P	99.92	67.36	1942
HSA-MIR-4496	99.88	68.89	2236
HSA-MIR-629-3P	99.85	67.99	1875
HSA-MIR-3180-5P	99.82	69.12	2422
HSA-MIR-4713-5P	99.78	67.80	1794
HSA-MIR-6885-3P	99.75	70.36	3187
HSA-MIR-3202	99.66	67.70	2737
HSA-MIR-298	99.63	67.56	1916
HSA-MIR-6722-3P	99.45	67.62	1919
HSA-MIR-3182	99.40	68.15	2454
HSA-MIR-7160-5P	99.11	67.17	2207
HSA-MIR-1909-3P	99.03	66.56	1662
HSA-MIR-5001-3P	98.91	67.28	1394
HSA-MIR-421	98.90	67.04	1883
HSA-MIR-4290	98.51	65.17	907
HSA-MIR-4709-5P	98.51	67.25	1335
HSA-MIR-6870-3P	98.08	65.10	692
HSA-MIR-4669	97.94	62.71	224
HSA-MIR-3650	97.88	64.89	693
HSA-MIR-6501-5P	97.41	68.24	712
HSA-MIR-3137	97.26	66.78	761
HSA-MIR-6815-5P	96.05	65.55	662
HSA-MIR-6865-5P	96.05	65.58	675

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 80.0% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 1)

• study showed that hOTAG-12b increases mRNAs of pro-apoptotic genes such as BAD, GADD45alpha and CIEDB, while inhibiting anti-apoptotic NAIP and Akt1 expression, suggesting that hOTAG-12b-induced apoptosis might be p53-independent (PMID:21339736)

Cross-species orthologs

6 orthologs

Organism	Symbol	Gene ID
danio_rerio	fam32a	ENSDARG00000042660
mus_musculus	Fam32a	ENSMUSG00000003039
rattus_norvegicus	Fam32al1	ENSRNOG00000015168
rattus_norvegicus	Fam32a	ENSRNOG00000066630
drosophila_melanogaster	CG15432	FBGN0031603
caenorhabditis_elegans		WBGENE00010479

Protein

Protein identifiers

Protein FAM32A — Q9Y421 (reviewed: Q9Y421)

Alternative names: Ovarian tumor-associated gene 12

All UniProt accessions (4): Q9Y421, K7EIY1, K7ELZ8, K7ENN5

UniProt curated annotations — full annotation on UniProt →

Function. Isoform 1, but not isoform 2 or isoform 3, may induce G2 arrest and apoptosis. May also increase cell sensitivity to apoptotic stimuli.

Subcellular location. Nucleus Nucleus.

Tissue specificity. Expressed in ovary, with isoform 1 being predominant.

Induction. By etoposide, puromycin or carboplatin.

Similarity. Belongs to the FAM32 family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q9Y421-1	1, OTAG-12b	yes
Q9Y421-2	2, OTAG-12a
Q9Y421-3	3, OTAG-12c

RefSeq proteins (1): NP_054796* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013865	FAM32A	Family

Pfam: PF08555

UniProt features (5 total): splice variant 2, chain 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

5 structures.

PDB	Method	Resolution (Å)
8C6J	ELECTRON MICROSCOPY	2.8
6QDV	ELECTRON MICROSCOPY	3.3
9FMD	ELECTRON MICROSCOPY	3.3
7W5A	ELECTRON MICROSCOPY	3.6
7W5B	ELECTRON MICROSCOPY	4.3

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9Y421-F1	79.85	0.32

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-72163	mRNA Splicing - Major Pathway

MSigDB gene sets: 121 (showing top): GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_UP, MONNIER_POSTRADIATION_TUMOR_ESCAPE_UP, FOSTER_TOLERANT_MACROPHAGE_UP, REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA, GOBP_RNA_SPLICING, REACTOME_MRNA_SPLICING, TIEN_INTESTINE_PROBIOTICS_24HR_UP, BREDEMEYER_RAG_SIGNALING_NOT_VIA_ATM_UP, REACTOME_METABOLISM_OF_RNA, GOCC_U2_TYPE_SPLICEOSOMAL_COMPLEX, GOCC_CATALYTIC_STEP_2_SPLICEOSOME, CHESLER_BRAIN_QTL_CIS, GOCC_SPLICEOSOMAL_COMPLEX

GO Biological Process (1): apoptotic process (GO:0006915)

GO Molecular Function (2): RNA binding (GO:0003723), protein binding (GO:0005515)

GO Cellular Component (3): nucleoplasm (GO:0005654), nucleolus (GO:0005730), nucleus (GO:0005634)

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
mRNA Splicing	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
nuclear lumen	2
programmed cell death	1
apoptotic signaling pathway	1
execution phase of apoptosis	1
nucleic acid binding	1
binding	1
cellular anatomical structure	1
intracellular membraneless organelle	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

530 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
FAM32A	PRKRIP1	Q9H875	665
FAM32A	CACTIN	Q8WUQ7	608
FAM32A	SLU7	O95391	604
FAM32A	CCDC90B	Q9GZT6	592
FAM32A	SDE2	Q6IQ49	575
FAM32A	RBM18	Q96H35	541
FAM32A	YJU2	Q9BW85	516
FAM32A	LRRC66	Q68CR7	452
FAM32A	SYF2	O95926	444
FAM32A	UBOX5	O94941	443
FAM32A	ZMAT2	Q96NC0	437
FAM32A	CFAP97	Q9P2B7	427
FAM32A	GLOD4	Q9HC38	417
FAM32A	KCTD10	Q9H3F6	411
FAM32A	ACTR10	Q9NZ32	411

IntAct

28 interactions, top by confidence:

A	B	Type	Score
CCDC60	DCP1B	psi-mi:“MI:0914”(association)	0.530
RPL4	TEFM	psi-mi:“MI:0914”(association)	0.530
CWC22	FAM32A	psi-mi:“MI:0915”(physical association)	0.510
FAM32A	CWC22	psi-mi:“MI:0915”(physical association)	0.510
CFTR	CNOT1	psi-mi:“MI:0914”(association)	0.480
steC	SCD	psi-mi:“MI:0914”(association)	0.460
Ccdc12	PLRG1	psi-mi:“MI:0914”(association)	0.350
CCDC22	VPS26C	psi-mi:“MI:0914”(association)	0.350
CCDC60	ZNF593	psi-mi:“MI:0914”(association)	0.350
CFTR	POTEF	psi-mi:“MI:0914”(association)	0.350
MAPT	SHTN1	psi-mi:“MI:0914”(association)	0.350
MAGEA9	CIBAR1	psi-mi:“MI:0914”(association)	0.350
MRPL53		psi-mi:“MI:0914”(association)	0.350
MAGEA9	MED19	psi-mi:“MI:0914”(association)	0.350
DUSP22	RAP2A	psi-mi:“MI:0914”(association)	0.350
GNLY	GTPBP10	psi-mi:“MI:0914”(association)	0.350
PSRC1	MPHOSPH10	psi-mi:“MI:0914”(association)	0.350
RPL26L1	ZNF316	psi-mi:“MI:0914”(association)	0.350
RRP7A	MAGEB2	psi-mi:“MI:0914”(association)	0.350
ZNF346	ZNF316	psi-mi:“MI:0914”(association)	0.350
	NFIB	psi-mi:“MI:0914”(association)	0.350
HRAS	IGKV2D-24	psi-mi:“MI:0914”(association)	0.350
KRAS		psi-mi:“MI:0914”(association)	0.350
HNRNPC	SBNO1	psi-mi:“MI:2364”(proximity)	0.270
NPM1	SBNO1	psi-mi:“MI:2364”(proximity)	0.270
NSFL1C	FAM32A	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (40): FAM32A (Reconstituted Complex), FAM32A (Affinity Capture-MS), FAM32A (Affinity Capture-MS), FAM32A (Synthetic Lethality), FAM32A (Affinity Capture-MS), FAM32A (Affinity Capture-MS), FAM32A (Affinity Capture-MS), FAM32A (Proximity Label-MS), FAM32A (Proximity Label-MS), FAM32A (Proximity Label-MS), FAM32A (Proximity Label-MS), FAM32A (Proximity Label-MS), FAM32A (Proximity Label-MS), FAM32A (Affinity Capture-MS), FAM32A (Affinity Capture-MS)

ESM2 similar proteins: A0A089QKZ7, A1WW03, A4R1G4, A6QR31, A6RKG5, A7E4K0, A8HV31, A9GN39, B1LSP9, B1W0D5, B2RYG1, B6HGB5, B6K8A0, B8NDQ2, C4Z073, C9S8J9, G2TRK9, P11573, P46532, P52154, P52157, P55613, P64952, P66029, P79058, P9WHF2, P9WHF3, P9WLI4, P9WLI5, Q05190, Q08000, Q0V389, Q28C44, Q2U9C3, Q3LSS0, Q50229, Q58DU0, Q5M9I6, Q5R9E5, Q640E9

Diamond homologs: A6QR31, B0JZ89, B2RYG1, Q5R9E5, Q6GQN4, Q92363, Q9CR80, Q9Y421

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	9
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

562 predictions. Top by Δscore:

Variant	Effect	Δscore
19:16185503:G:GT	donor_gain	1.0000
19:16185514:GCG:G	donor_gain	1.0000
19:16185762:GCGG:G	donor_gain	1.0000
19:16185763:CGGG:C	donor_loss	1.0000
19:16185764:GG:G	donor_gain	1.0000
19:16185764:GGGT:G	donor_loss	1.0000
19:16185765:GG:G	donor_gain	1.0000
19:16185765:GGT:G	donor_loss	1.0000
19:16185766:G:GG	donor_gain	1.0000
19:16185766:GTGA:G	donor_loss	1.0000
19:16185767:T:G	donor_loss	1.0000
19:16190515:TCCAG:T	acceptor_loss	1.0000
19:16190517:CAG:C	acceptor_loss	1.0000
19:16190518:A:AC	acceptor_loss	1.0000
19:16190518:A:AG	acceptor_gain	1.0000
19:16190519:G:GA	acceptor_gain	1.0000
19:16190519:GC:G	acceptor_gain	1.0000
19:16190519:GCA:G	acceptor_gain	1.0000
19:16190519:GCAA:G	acceptor_gain	1.0000
19:16190570:GGAG:G	donor_gain	1.0000
19:16190571:GAG:G	donor_gain	1.0000
19:16190571:GAGG:G	donor_gain	1.0000
19:16190571:GAGGT:G	donor_loss	1.0000
19:16190572:AGG:A	donor_loss	1.0000
19:16190573:GGTG:G	donor_loss	1.0000
19:16190574:G:GA	donor_loss	1.0000
19:16190574:G:GG	donor_gain	1.0000
19:16190575:T:A	donor_loss	1.0000
19:16185516:GGTGA:G	donor_loss	0.9900
19:16185517:G:GC	donor_loss	0.9900

AlphaMissense

737 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:16190556:C:G	H85D	1.000
19:16190558:C:A	H85Q	1.000
19:16190558:C:G	H85Q	1.000
19:16190561:G:C	K86N	1.000
19:16190561:G:T	K86N	1.000
19:16190891:T:C	F92S	1.000
19:16190895:C:A	N93K	1.000
19:16190895:C:G	N93K	1.000
19:16190903:T:A	L96Q	1.000
19:16190903:T:C	L96P	1.000
19:16190912:T:C	L99P	1.000
19:16190920:C:G	H102D	1.000
19:16190926:G:C	D104H	1.000
19:16190927:A:C	D104A	1.000
19:16190927:A:G	D104G	1.000
19:16190927:A:T	D104V	1.000
19:16190930:T:A	I105N	1.000
19:16190930:T:C	I105T	1.000
19:16190937:A:C	K107N	1.000
19:16190937:A:T	K107N	1.000
19:16190941:A:C	S109R	1.000
19:16190943:C:A	S109R	1.000
19:16190943:C:G	S109R	1.000
19:16190944:T:A	W110R	1.000
19:16190944:T:C	W110R	1.000
19:16185731:C:A	A61D	0.999
19:16185739:G:C	A64P	0.999
19:16185742:T:C	F65L	0.999
19:16185744:C:A	F65L	0.999
19:16185744:C:G	F65L	0.999

dbSNP variants (sampled 300 via entrez): RS1000025908 (19:16184018 C>G), RS1000028752 (19:16187286 C>G,T), RS1000059785 (19:16186989 G>A), RS1000480301 (19:16187989 A>C,G), RS1000949260 (19:16187415 A>G), RS1001085087 (19:16187584 G>A,T), RS1001848880 (19:16187784 T>C,G), RS1001922358 (19:16187593 C>T), RS1002168457 (19:16187698 G>C), RS1002503950 (19:16189311 C>T), RS1002640297 (19:16185261 C>G,T), RS1003748027 (19:16192114 G>A), RS1003779111 (19:16190677 G>A,C), RS1003865071 (19:16190581 G>A), RS1003938942 (19:16190263 C>T)

Disease associations

OMIM: gene MIM:614554 | 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

26 total (human), top 26 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Tobacco Smoke Pollution	increases expression	2
bisphenol F	affects cotreatment, decreases expression	1
triphenyl phosphate	affects expression	1
beta-lapachone	decreases expression	1
sodium arsenite	increases expression	1
(4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)	increases expression	1
4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acid	increases expression	1
Resveratrol	affects cotreatment, increases expression	1
Leflunomide	decreases expression	1
Atrazine	decreases expression	1
Benzo(a)pyrene	increases methylation	1
Copper	affects binding, decreases expression	1
Dexamethasone	affects cotreatment, decreases expression	1
Disulfiram	affects binding, decreases expression	1
Doxorubicin	increases expression	1
Indomethacin	decreases expression, affects cotreatment	1
Plant Extracts	affects cotreatment, increases expression	1
Selenium	increases expression	1
Smoke	decreases expression	1
Tetrachlorodibenzodioxin	increases expression	1
Tretinoin	increases expression	1
Valproic Acid	affects expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, decreases expression	1
Cyclosporine	decreases expression	1
Copper Sulfate	increases expression	1
Lactic Acid	decreases expression	1

Clinical trials (associated diseases)

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