TEX55

Summary

TEX55 (testis expressed 55, HGNC:26553) is a protein-coding gene on chromosome 3q13.32, encoding Testis-specific expressed protein 55 (Q96M34).

Located in sperm flagellum.

Source: NCBI Gene 152405 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 9 total
• MANE Select transcript: NM_152539

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:26553
Approved symbol	TEX55
Name	testis expressed 55
Location	3q13.32
Locus type	gene with protein product
Status	Approved
Aliases	FLJ32859, TSCPA
Ensembl gene	ENSG00000163424
Ensembl biotype	protein_coding
Entrez	152405

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 4 protein_coding, 1 nonsense_mediated_decay

ENST00000295622, ENST00000460150, ENST00000473121, ENST00000492792, ENST00000494105

RefSeq mRNA: 1 — MANE Select: NM_152539 NM_152539

CCDS: CCDS2984

Canonical transcript exons

ENST00000295622 — 3 exons

Exon	Start	End
ENSE00001074350	119151224	119151456
ENSE00001074351	119146165	119147587
ENSE00003631311	119148180	119148323

Expression profiles

Bgee: expression breadth broad, 26 present calls, max score 95.22.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.1069 / max 81.1953, expressed in 5 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
38072	0.0753	5
38071	0.0316	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	95.22	gold quality
right testis	UBERON:0004534	95.18	gold quality
testis	UBERON:0000473	94.88	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	85.55	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	49.90	gold quality
bone marrow cell	CL:0002092	41.22	gold quality
ventricular zone	UBERON:0003053	41.12	gold quality
colonic epithelium	UBERON:0000397	37.20	gold quality
skeletal muscle tissue	UBERON:0001134	36.85	gold quality
calcaneal tendon	UBERON:0003701	36.74	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
mucosa of transverse colon	UBERON:0004991	36.45	gold quality
hindlimb stylopod muscle	UBERON:0004252	36.15	silver quality
granulocyte	CL:0000094	36.01	gold quality
endometrium	UBERON:0001295	35.94	gold quality
adult mammalian kidney	UBERON:0000082	35.76	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
kidney	UBERON:0002113	34.33	gold quality
bone marrow	UBERON:0002371	34.33	gold quality
muscle tissue	UBERON:0002385	33.61	gold quality
corpus callosum	UBERON:0002336	33.08	gold quality
placenta	UBERON:0001987	32.51	gold quality
right uterine tube	UBERON:0001302	31.70	gold quality
leukocyte	CL:0000738	31.02	gold quality
descending thoracic aorta	UBERON:0002345	30.85	gold quality
monocyte	CL:0000576	30.77	gold quality
tonsil	UBERON:0002372	30.73	gold quality
blood	UBERON:0000178	30.06	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
prefrontal cortex	UBERON:0000451	29.58	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.28

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

22 targeting TEX55, 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-548AJ-3P	99.96	73.38	5345
HSA-MIR-548X-3P	99.96	73.38	5345
HSA-MIR-548J-3P	99.94	72.61	4881
HSA-MIR-548AE-3P	99.93	72.66	4867
HSA-MIR-548AH-3P	99.93	72.54	4872
HSA-MIR-548AM-3P	99.93	72.54	4872
HSA-MIR-548AQ-3P	99.93	72.66	4867
HSA-MIR-95-5P	99.89	72.17	3973
HSA-MIR-4307	99.82	70.45	3374
HSA-MIR-4677-5P	99.70	70.09	1940
HSA-MIR-1284	99.67	73.56	1353
HSA-MIR-7156-5P	99.64	68.81	1369
HSA-MIR-567	99.63	68.57	1219
HSA-MIR-3123	99.47	67.15	2693
HSA-MIR-1276	99.36	68.18	1642
HSA-MIR-4999-5P	99.35	69.15	926
HSA-MIR-4311	99.31	70.47	3041
HSA-MIR-6739-3P	99.22	68.84	1843
HSA-MIR-583	98.71	67.44	1791
HSA-MIR-1537-5P	98.70	68.33	999
HSA-MIR-4718	98.55	68.61	814
HSA-MIR-4790-3P	96.63	67.08	806

Literature-anchored findings (GeneRIF, showing 1)

• TSCPA was expressed specifically in mouse and human testis and might play an important role in spermatogenesis. (PMID:19821082)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Tex55	ENSMUSG00000022798
rattus_norvegicus	Tex55	ENSRNOG00000042555

Paralogs (1): EFCAB10 (ENSG00000185055)

Protein

Protein identifiers

Testis-specific expressed protein 55 — Q96M34 (reviewed: Q96M34)

Alternative names: Testis-specific conserved, cAMP-dependent type II PK-anchoring protein

All UniProt accessions (5): Q96M34, H7C4V1, H7C564, H7C5E0, S4R404

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Nucleus. Cell projection. Cilium. Flagellum.

Tissue specificity. Testis-specific.

RefSeq proteins (1): NP_689752* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR040760	Tex55	Family
IPR048377	TEX55_DD	Domain

Pfam: PF17819

UniProt features (18 total): compositionally biased region 9, sequence variant 6, region of interest 2, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96M34-F1	48.94	0.08

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 21 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_DN, GOCC_MOTILE_CILIUM, GOCC_CILIUM, GOCC_9PLUS2_MOTILE_CILIUM, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, MIR4307, MIR4311, MIR4677_5P, MIR3123, MIR4999_5P, MIR4790_3P, chr3q13, PAX6_TARGET_GENES, GSE2706_LPS_VS_R848_AND_LPS_2H_STIM_DC_DN, GSE37416_CTRL_VS_48H_F_TULARENSIS_LVS_NEUTROPHIL_UP

GO Biological Process (0):

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

GO Cellular Component (5): nucleus (GO:0005634), sperm flagellum (GO:0036126), cilium (GO:0005929), motile cilium (GO:0031514), cell projection (GO:0042995)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
intracellular membrane-bounded organelle	1
9+2 motile cilium	1
intraciliary transport particle	1
membrane-bounded organelle	1
plasma membrane bounded cell projection	1
cilium	1
cellular anatomical structure	1

Protein interactions and networks

STRING

216 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TEX55	PRSS54	Q6PEW0	643
TEX55	EFCAB10	A6NFE3	626
TEX55	GOLGA6L6	A8MZA4	602
TEX55	SPMIP9	Q96LM6	585
TEX55	CATIP	Q7Z7H3	582
TEX55	ROPN1B	Q9BZX4	570
TEX55	PRSS55	Q6UWB4	549
TEX55	RIIAD1	A6NNX1	529
TEX55	TPGS1	Q6ZTW0	527
TEX55	C8orf34	Q49A92	506
TEX55	GOLGA6L2	Q8N9W4	506
TEX55	FBXL13	Q8NEE6	454
TEX55	AK8	Q96MA6	446
TEX55	ADAM32	Q8TC27	442
TEX55	ADAM21	Q9UKJ8	433

IntAct

4 interactions, top by confidence:

A	B	Type	Score
HTT	TEX55	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (2): C3orf30 (Cross-Linking-MS (XL-MS)), C3orf30 (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A0A0P0XCU3, A0A1P8BH59, A1YFC1, A1YGK6, A2T7F2, A6NJ88, B7SY83, F1QU13, F4HXQ7, F4ICX9, F4INW9, F4KCE9, O04251, O81472, O96001, P0CV01, P0CV36, P0CV42, P0CV43, P0CV45, P0CV46, P0CV55, P0CV57, P0CV58, P10322, P16531, P48786, Q0DVU4, Q10P83, Q2EI21, Q3URU2, Q5JY77, Q5QNA6, Q5R7U0, Q5SRN2, Q5U4C1, Q5XPK0, Q6K5K2, Q7T2B3, Q8N3K9

Diamond homologs: A6X8Z9, Q96M34

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	8
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

340 predictions. Top by Δscore:

Variant	Effect	Δscore
3:119147588:G:GG	donor_gain	0.9900
3:119147583:AATCT:A	donor_gain	0.9800
3:119147584:ATCT:A	donor_gain	0.9700
3:119159956:G:GG	donor_gain	0.9700
3:119147585:TCT:T	donor_gain	0.9600
3:119159955:A:AG	donor_gain	0.9600
3:119147477:A:AG	donor_gain	0.9400
3:119147478:G:GG	donor_gain	0.9400
3:119147586:CT:C	donor_gain	0.9400
3:119151289:AT:A	donor_gain	0.9400
3:119147593:T:G	donor_gain	0.9300
3:119147585:TCTGT:T	donor_loss	0.8900
3:119147587:TGTAA:T	donor_loss	0.8900
3:119147588:G:GA	donor_loss	0.8900
3:119147589:TA:T	donor_loss	0.8900
3:119147590:AAG:A	donor_loss	0.8900
3:119147591:AGTTA:A	donor_loss	0.8900
3:119147592:G:T	donor_loss	0.8900
3:119147586:CTGT:C	donor_loss	0.8700
3:119147587:TGTA:T	donor_loss	0.8700
3:119147589:T:TG	donor_loss	0.8700
3:119147590:AAGT:A	donor_loss	0.8700
3:119147482:C:G	donor_gain	0.8300
3:119147575:A:AG	donor_gain	0.8300
3:119147576:G:GG	donor_gain	0.8300
3:119148254:A:AG	acceptor_gain	0.7900
3:119148255:G:GG	acceptor_gain	0.7900
3:119150186:A:AG	acceptor_gain	0.7400
3:119150187:A:G	acceptor_gain	0.7000
3:119146312:G:GT	donor_gain	0.6900

AlphaMissense

3553 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
3:119148318:T:C	F513L	0.995
3:119148320:C:A	F513L	0.995
3:119148320:C:G	F513L	0.995
3:119151272:T:C	F531L	0.995
3:119151274:T:A	F531L	0.995
3:119151274:T:G	F531L	0.995
3:119148283:T:C	L501P	0.991
3:119148319:T:C	F513S	0.991
3:119151240:T:C	L520S	0.991
3:119151267:T:C	L529P	0.990
3:119148300:C:G	H507D	0.986
3:119148319:T:G	F513C	0.986
3:119148301:A:C	H507P	0.985
3:119148307:T:C	I509T	0.985
3:119151276:T:G	M532R	0.985
3:119151279:T:C	L533P	0.985
3:119148310:T:C	L510P	0.984
3:119151228:T:G	I516S	0.983
3:119151243:T:A	V521D	0.982
3:119151273:T:C	F531S	0.982
3:119148307:T:G	I509S	0.981
3:119151228:T:C	I516T	0.981
3:119151276:T:C	M532T	0.981
3:119151276:T:A	M532K	0.980
3:119148288:T:G	Y503D	0.979
3:119148289:A:C	Y503S	0.979
3:119148265:A:G	D495G	0.977
3:119148270:T:G	Y497D	0.976
3:119148307:T:A	I509N	0.976
3:119151264:C:A	P528H	0.976

dbSNP variants (sampled 300 via entrez): RS1000892004 (3:119151167 C>A,G), RS1001376912 (3:119145615 T>C), RS1002524184 (3:119144688 TA>T,TAA), RS1002660393 (3:119151075 C>T), RS1003312681 (3:119147908 C>T), RS1003343776 (3:119147598 T>C), RS1003694840 (3:119148873 A>G), RS1004706235 (3:119145569 G>C), RS1004792538 (3:119145348 C>T), RS10049288 (3:119146065 G>A,T), RS1005081635 (3:119145743 G>A), RS1005460771 (3:119147956 A>G), RS1005760380 (3:119148259 A>G), RS1006350518 (3:119146901 C>T), RS1006790053 (3:119149129 T>C)

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

1 associations (top):

Study	Trait	p-value
GCST007643_2	Gemcitabine-induced early high-grade neutropenia in pancreatic cancer	5.000000e-06

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

8 total (human), top 8 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Resveratrol	affects cotreatment, decreases expression	1
Arsenic	affects methylation	1
Benzo(a)pyrene	decreases methylation	1
Plant Extracts	affects cotreatment, decreases expression	1
Tobacco Smoke Pollution	increases expression	1
Valproic Acid	increases methylation	1
Aflatoxin B1	increases methylation	1
Permethrin	decreases expression	1

Clinical trials (associated diseases)

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