CT45A2

Summary

CT45A2 (cancer/testis antigen family 45 member A2, HGNC:28400) is a protein-coding gene on chromosome Xq26.3, encoding Cancer/testis antigen family 45 member A2 (Q5DJT8).

This gene represents one of a cluster of several similar genes located on the q arm of chromosome X. The genes in this cluster encode members of the cancer/testis (CT) family of antigens, and are distinct from other CT antigens. These antigens are thought to be novel therapeutic targets for human cancers.

Source: NCBI Gene 728911 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 1 total
• MANE Select transcript: NM_152582

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28400
Approved symbol	CT45A2
Name	cancer/testis antigen family 45 member A2
Location	Xq26.3
Locus type	gene with protein product
Status	Approved
Aliases	CT45-2, CT45.2
Ensembl gene	ENSG00000271449
Ensembl biotype	protein_coding
OMIM	300793
Entrez	728911

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 protein_coding

ENST00000605791, ENST00000612907

RefSeq mRNA: 1 — MANE Select: NM_152582 NM_152582

CCDS: CCDS76031

Canonical transcript exons

ENST00000612907 — 5 exons

Exon	Start	End
ENSE00003056746	135813454	135813547
ENSE00003060881	135811668	135812231
ENSE00003717108	135813928	135814176
ENSE00003734388	135816097	135816271
ENSE00003745200	135819774	135820012

Expression profiles

Bgee: expression breadth broad, 19 present calls, max score 80.29.

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	80.29	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	77.62	gold quality
granulocyte	CL:0000094	37.28	gold quality
colonic epithelium	UBERON:0000397	37.20	gold quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
skeletal muscle tissue	UBERON:0001134	33.38	gold quality
prefrontal cortex	UBERON:0000451	32.17	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
bone marrow	UBERON:0002371	31.74	gold quality
muscle tissue	UBERON:0002385	31.06	gold quality
sural nerve	UBERON:0015488	30.93	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
duodenum	UBERON:0002114	28.14	gold quality
liver	UBERON:0002107	28.04	gold quality
lymph node	UBERON:0000029	27.57	gold quality
tonsil	UBERON:0002372	27.05	gold quality
islet of Langerhans	UBERON:0000006	26.55	gold quality
blood	UBERON:0000178	26.53	gold quality
frontal cortex	UBERON:0001870	26.49	gold quality
vermiform appendix	UBERON:0001154	26.42	gold quality
leukocyte	CL:0000738	26.15	gold quality
gall bladder	UBERON:0002110	25.98	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	25.89	gold quality
placenta	UBERON:0001987	25.81	gold quality
urinary bladder	UBERON:0001255	25.72	gold quality
monocyte	CL:0000576	25.37	gold quality
muscle of leg	UBERON:0001383	25.15	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

18 targeting CT45A2, 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-6833-3P	100.00	70.63	3197
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-4455	100.00	65.48	1587
HSA-MIR-3148	99.97	75.06	6478
HSA-MIR-6845-3P	99.94	66.88	1439
HSA-MIR-4493	99.90	66.48	977
HSA-MIR-3133	99.81	70.92	3506
HSA-MIR-4668-5P	99.79	70.58	3782
HSA-MIR-586	99.65	70.40	2051
HSA-MIR-4279	99.19	66.70	2437
HSA-MIR-5006-5P	98.79	66.92	1246
HSA-MIR-5572	98.55	65.84	970
HSA-MIR-6819-5P	97.96	66.59	1071
HSA-MIR-3151-3P	97.80	66.16	479
HSA-MIR-6737-5P	97.75	66.54	1044
HSA-MIR-6812-5P	97.56	65.39	1059
HSA-MIR-3674	97.01	68.86	1171
HSA-MIR-6747-5P	96.17	64.99	743

Literature-anchored findings (GeneRIF, showing 2)

• CT45A2 is a novel spliced MLL fusion partner in de novo biphenotypic acute leukemia [case report] (PMID:20920256)
• Ursolic acid promotes apoptosis and mediates transcriptional suppression of CT45A2 gene expression in non-small-cell lung carcinoma harbouring EGFR T790M mutations. (PMID:31322286)

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
mus_musculus	Ct45a	ENSMUSG00000064016
rattus_norvegicus	Ct45a9	ENSRNOG00000048059
drosophila_melanogaster	IntS6	FBGN0261383
caenorhabditis_elegans		WBGENE00000994

Paralogs (11): INTS6 (ENSG00000102786), INTS6L (ENSG00000165359), SAGE1 (ENSG00000181433), CT45A5 (ENSG00000228836), CT45A1 (ENSG00000268940), CT45A3 (ENSG00000269096), CT45A10 (ENSG00000269586), CT45A9 (ENSG00000270946), CT45A7 (ENSG00000273696), CT45A8 (ENSG00000278085), CT45A6 (ENSG00000278289)

Protein

Protein identifiers

Cancer/testis antigen family 45 member A2 — Q5DJT8 (reviewed: Q5DJT8)

Alternative names: Cancer/testis antigen 45-2, Cancer/testis antigen 45A2

All UniProt accessions (1): Q5DJT8

UniProt curated annotations — full annotation on UniProt →

Tissue specificity. Testis specific. Expressed in cancer cell lines.

Similarity. Belongs to the CT45 family.

RefSeq proteins (1): NP_689795* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR029307	INT_SG_DDX_CT_C	Domain
IPR051113	Integrator_subunit6	Family

Pfam: PF15300

UniProt features (4 total): sequence conflict 3, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q5DJT8-F1	68.89	0.19

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 3 (showing top): chrXq26, HE_LIM_SUN_FETAL_LUNG_C0_MYOFIBROBLAST_1_CELL, HE_LIM_SUN_FETAL_LUNG_C0_MYOFIBROBLAST_2_CELL

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

228 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
CT45A2	ZFYVE19	Q96K21	506
CT45A2	MRFAP1L1	Q96HT8	432
CT45A2	ELL	P55199	379
CT45A2	BTBD18	B2RXH4	370
CT45A2	MLLT11	Q13015	368
CT45A2	MPZL3	Q6UWV2	350
CT45A2	VCX2	Q9H322	348
CT45A2	SEPTIN6	Q14141	344
CT45A2	MYO1F	O00160	339
CT45A2	MLLT10	P55197	321
CT45A2	AFF1	P51825	314
CT45A2	VCX3A	Q9NNX9	310
CT45A2	SEPTIN5	Q99719	305
CT45A2	MLLT6	P55198	300
CT45A2	PCDHB11	Q9Y5F2	296

IntAct

6 interactions, top by confidence:

A	B	Type	Score
Ppp4r3a	TIA1	psi-mi:“MI:0914”(association)	0.350
MMGT1	DERL1	psi-mi:“MI:0914”(association)	0.350
NCBP3	RSL1D1	psi-mi:“MI:0914”(association)	0.350
NCBP2	SEH1L	psi-mi:“MI:0914”(association)	0.350
APOM	HLA-A	psi-mi:“MI:0914”(association)	0.350

ESM2 similar proteins: A0A097I2D0, A0A1W2PP81, A0A1W2PPE2, A0A1W2PPH5, A0A1W2PPL8, A0A1W2PPW3, A0A1W2PQ09, A0A1W2PR64, A0A1W2PRV1, A6NLC8, F4HR03, O54825, O75461, P0C1H6, P0CV38, P0DMV1, P0DMV2, P0DW11, P0DW12, P0DW13, P0DW14, P40914, P49585, P49906, P81195, Q0MTC0, Q13895, Q15544, Q2N2K6, Q3SZB8, Q5DJT8, Q5RA91, Q5U1X0, Q6CER9, Q6RG77, Q6XL73, Q75DE4, Q7XHR2, Q7Z2G1, Q80WL2

Diamond homologs: A6NJ88, P0DMU7, P0DMU8, P0DMU9, P0DMV0, P0DMV1, P0DMV2, Q2TAF4, Q5DJT8, Q5HYN5, Q5JSJ4, Q5U4W6, Q6PCM2, Q7SYD9, Q8BND4, Q8NHU0, Q9NXZ1, Q9UL03, Q54Z23, Q9W485

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

43 predictions. Top by Δscore:

Variant	Effect	Δscore
X:135812229:CAT:C	acceptor_gain	0.9900
X:135812227:TACAT:T	acceptor_gain	0.9800
X:135812231:TCTGA:T	acceptor_loss	0.9800
X:135812232:C:CC	acceptor_gain	0.9800
X:135812232:C:CG	acceptor_loss	0.9800
X:135812233:T:A	acceptor_loss	0.9800
X:135812228:ACAT:A	acceptor_gain	0.9700
X:135812229:CATC:C	acceptor_gain	0.9700
X:135812230:AT:A	acceptor_gain	0.9600
X:135812230:A:T	acceptor_gain	0.7200
X:135812230:A:C	acceptor_gain	0.5700
X:135812234:G:C	acceptor_loss	0.5600
X:135814780:G:GT	donor_gain	0.5100
X:135814750:G:T	donor_gain	0.4900
X:135812228:ACATC:A	acceptor_gain	0.4800
X:135812244:AGACA:A	acceptor_gain	0.4600
X:135812230:ATCTG:A	acceptor_gain	0.4300
X:135814751:G:GT	donor_gain	0.4200
X:135812254:TTAA:T	acceptor_gain	0.3400
X:135814776:G:GT	donor_gain	0.3300
X:135812231:TCTG:T	acceptor_gain	0.3200
X:135812229:CATCT:C	acceptor_gain	0.3100
X:135812232:C:A	acceptor_gain	0.3000
X:135812645:G:C	acceptor_gain	0.3000
X:135812643:C:G	acceptor_gain	0.2900
X:135812245:GACAT:G	acceptor_gain	0.2800
X:135814735:GAG:G	donor_gain	0.2800
X:135814736:GGA:G	donor_gain	0.2800
X:135812226:A:AC	acceptor_gain	0.2700
X:135812239:GAAA:G	acceptor_loss	0.2600

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 96 via entrez): RS1158059612 (X:135821203 A>AAGAAG,AAGAAGGAAG), RS1175723017 (X:135815478 G>A), RS1252673953 (X:135815517 G>A), RS1255928065 (X:135815906 TAA>T,TA,TAAAA,TAAAAA,TAAAAAA), RS1305263809 (X:135815962 G>T), RS1314336133 (X:135815948 G>C), RS1400787680 (X:135818557 T>A), RS1412382053 (X:135818426 G>A), RS1412951820 (X:135821227 C>A), RS1434689690 (X:135814731 T>C), RS1467476884 (X:135821161 G>A), RS1472413381 (X:135821215 G>A), RS1474276636 (X:135821259 T>C), RS1482826975 (X:135815479 T>C), RS1485008797 (X:135815894 C>T)

Disease associations

OMIM: gene MIM:300793 | 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

3 total (human), top 3 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
(4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)	increases expression	1
Cadmium	decreases expression	1
Valproic Acid	increases methylation	1

Clinical trials (associated diseases)

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