FAM90A10

Summary

FAM90A10 (family with sequence similarity 90 member A10, HGNC:32258) is a protein-coding gene on chromosome 8p23.1, encoding Protein FAM90A10 (A6NDY2).

FAM90A10 belongs to subfamily II of the primate-specific FAM90A gene family, which originated from multiple duplications and rearrangements (Bosch et al., 2007 [PubMed 17684299]). For background information on the FAM90A gene family, as well as information on the evolution of FAM90A genes, see FAM90A1 (MIM 613041).

Source: NCBI Gene 441328 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_001164447

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:32258
Approved symbol	FAM90A10
Name	family with sequence similarity 90 member A10
Location	8p23.1
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000285950
Ensembl biotype	protein_coding
OMIM	613047
Entrez	441328

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 protein_coding

ENST00000533716, ENST00000851022

RefSeq mRNA: 1 — MANE Select: NM_001164447 NM_001164447

CCDS: CCDS94255

Canonical transcript exons

ENST00000533716 — 4 exons

Exon	Start	End
ENSE00003513506	7769594	7769793
ENSE00003646951	7770252	7770360
ENSE00004283428	7771026	7771988
ENSE00004283429	7768977	7769099

Expression profiles

Bgee: expression breadth not_expressed, 0 present calls, max score 40.67.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
ganglionic eminence	UBERON:0004023	40.67	gold quality
ventricular zone	UBERON:0003053	39.85	gold quality
granulocyte	CL:0000094	37.70	gold quality
colonic epithelium	UBERON:0000397	37.20	gold quality
skeletal muscle tissue	UBERON:0001134	36.59	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
muscle tissue	UBERON:0002385	34.58	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
bone marrow	UBERON:0002371	31.74	gold quality
sural nerve	UBERON:0015488	30.93	gold quality
tonsil	UBERON:0002372	30.25	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
prefrontal cortex	UBERON:0000451	29.66	gold quality
liver	UBERON:0002107	29.05	gold quality
leukocyte	CL:0000738	28.91	gold quality
urinary bladder	UBERON:0001255	28.78	gold quality
lymph node	UBERON:0000029	28.68	gold quality
monocyte	CL:0000576	28.39	gold quality
duodenum	UBERON:0002114	28.14	gold quality
smooth muscle tissue	UBERON:0001135	27.69	gold quality
placenta	UBERON:0001987	27.67	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	27.55	gold quality
primary visual cortex	UBERON:0002436	27.27	gold quality
islet of Langerhans	UBERON:0000006	27.21	gold quality
superior frontal gyrus	UBERON:0002661	26.72	gold quality
myometrium	UBERON:0001296	26.45	gold quality
vermiform appendix	UBERON:0001154	26.42	gold quality
blood	UBERON:0000178	26.11	gold quality
gall bladder	UBERON:0002110	25.98	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.10

Regulation

Is transcription factor: no

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
mus_musculus	Fam90a1b	ENSMUSG00000043549
mus_musculus	Fam90a1a	ENSMUSG00000079112
rattus_norvegicus	Fam90a1l1	ENSRNOG00000064072

Paralogs (21): FAM90A1 (ENSG00000171847), FAM90A27P (ENSG00000189348), FAM90A24 (ENSG00000215354), FAM90A5 (ENSG00000215373), FAM90A13 (ENSG00000223885), FAM90A26 (ENSG00000229924), FAM90A15 (ENSG00000230045), FAM90A11 (ENSG00000233115), FAM90A3 (ENSG00000233132), FAM90A20 (ENSG00000233295), FAM90A12 (ENSG00000254229), FAM90A9 (ENSG00000285607), FAM90A16 (ENSG00000285620), FAM90A19 (ENSG00000285657), FAM90A22 (ENSG00000285687), FAM90A17 (ENSG00000285720), FAM90A23 (ENSG00000285765), FAM90A14 (ENSG00000285814), FAM90A18 (ENSG00000285913), FAM90A8 (ENSG00000285937), FAM90A7 (ENSG00000285975)

Protein

Protein identifiers

Protein FAM90A10 — A6NDY2 (reviewed: A6NDY2)

All UniProt accessions (1): A6NDY2

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the FAM90 family.

RefSeq proteins (1): NP_001157919* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR039213	FAM90	Family
IPR041670	Znf-CCHC_6	Domain

Pfam: PF15288

UniProt features (7 total): region of interest 3, compositionally biased region 3, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A6NDY2-F1	50.42	0.05

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 2 (showing top): FORTSCHEGGER_PHF8_TARGETS_UP, chr8p23

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

28 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
FAM90A10	USP17L4	A6NCW7	762
FAM90A10	USP17L7	P0C7H9	720
FAM90A10	USP17L1	Q7RTZ2	661
FAM90A10	PRR23B	Q6ZRT6	594
FAM90A10	PRR23A	A6NEV1	583
FAM90A10	PRR23D1	E9PI22	583
FAM90A10	DEFB108B	Q8NET1	577
FAM90A10	DEFB107A	Q8IZN7	572
FAM90A10	PRR23C	Q6ZRP0	529
FAM90A10	DEFB106A	Q8N104	505
FAM90A10	DEFB105A	Q8NG35	479
FAM90A10	USP17L25	Q0WX57	435
FAM90A10	USP17L2	Q6R6M4	374
FAM90A10	A0A0G2JN59	A0A0G2JN59	288

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A0A096LP49, A0A8V8TNH8, A0A8V8TPE2, A2VE02, A5D7I0, A6NDY2, A6NGG8, A6NIJ5, A6NNJ1, A8MXJ8, A8MYA2, B1ASB6, B2RW88, D6RGX4, O60269, P0C7V4, P0C7W8, P0C7W9, P0C7X0, P0DV75, P0DV76, Q2KIS6, Q2NL68, Q3SY00, Q4R736, Q4V8B5, Q5RCQ2, Q5SZB4, Q5VZ46, Q5XIK6, Q658T7, Q66JV7, Q6NS69, Q6PAC4, Q6ZMY3, Q76N32, Q7TSA6, Q7Z591, Q80VW7, Q80X53

Diamond homologs: A0A8V8TNH8, A0A8V8TPE2, A6NDY2, A6NIJ5, A6NJQ4, A6NKC0, A6NNH2, A6NNJ1, A8MWA6, A8MX19, A8MXJ8, A8MXZ1, D6RGX4, P0C7V4, P0C7W8, P0C7W9, P0C7X0, P0DV73, P0DV74, P0DV75, P0DV76, Q658T7, Q86YD7

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

2998 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
8:7769618:T:C	F50L	0.970
8:7769620:T:A	F50L	0.970
8:7769620:T:G	F50L	0.970
8:7769626:C:A	H52Q	0.946
8:7769626:C:G	H52Q	0.946
8:7771803:T:A	W404R	0.945
8:7771803:T:C	W404R	0.945
8:7769600:T:A	C44S	0.944
8:7769601:G:C	C44S	0.944
8:7771779:T:C	F396L	0.944
8:7771781:C:A	F396L	0.944
8:7771781:C:G	F396L	0.944
8:7769645:T:C	C59R	0.942
8:7769609:T:A	C47S	0.938
8:7769610:G:C	C47S	0.938
8:7769599:G:C	K43N	0.925
8:7769599:G:T	K43N	0.925
8:7771805:G:C	W404C	0.920
8:7771805:G:T	W404C	0.920
8:7769610:G:A	C47Y	0.919
8:7769647:C:G	C59W	0.912
8:7769645:T:A	C59S	0.910
8:7769646:G:C	C59S	0.910
8:7769622:G:A	G51D	0.908
8:7769609:T:C	C47R	0.901
8:7769600:T:C	C44R	0.897
8:7769646:G:A	C59Y	0.897
8:7769610:G:T	C47F	0.888
8:7771780:T:C	F396S	0.888
8:7769611:C:G	C47W	0.877

dbSNP variants (sampled 300 via entrez): RS1000852516 (8:7769482 C>G), RS1014370401 (8:7770682 G>A,C), RS1015261804 (8:7771518 AG>A), RS1024373059 (8:7771080 C>G,T), RS1028812613 (8:7771632 C>A,G), RS1055999460 (8:7769604 A>G), RS111325399 (8:7771600 C>A), RS111326262 (8:7769315 C>A), RS111407377 (8:7771291 C>A,G), RS111914545 (8:7771202 G>A,C,T), RS111966724 (8:7771862 C>T), RS112102316 (8:7770238 T>C), RS112178224 (8:7772422 C>A,T), RS112212184 (8:7769590 A>G,T), RS112239159 (8:7770843 C>A,T)

Disease associations

OMIM: gene MIM:613047 | 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

4 total (human), top 4 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
propionaldehyde	increases expression	1
butyraldehyde	increases expression	1
Benzo(a)pyrene	decreases methylation	1
Aflatoxin B1	increases expression	1

Clinical trials (associated diseases)

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