TEX13D

Summary

TEX13D (TEX13 family member D, HGNC:52278) is a protein-coding gene on chromosome Xq25, encoding Testis-expressed protein 13D (A0A0J9YY54).

Predicted to enable mRNA binding activity.

Source: NCBI Gene 100132015 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 4 total
• MANE Select transcript: NM_001355534

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:52278
Approved symbol	TEX13D
Name	TEX13 family member D
Location	Xq25
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000282419
Ensembl biotype	protein_coding
OMIM	301124
Entrez	100132015

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 1 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000632372, ENST00000635518

RefSeq mRNA: 1 — MANE Select: NM_001355534 NM_001355534

CCDS: CCDS87773

Canonical transcript exons

ENST00000632372 — 1 exons

Exon	Start	End
ENSE00003777428	124332660	124336863

Expression profiles

Bgee: expression breadth broad, 21 present calls, max score 73.50.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	73.50	gold quality
right testis	UBERON:0004534	69.13	gold quality
testis	UBERON:0000473	66.56	gold quality
left testis	UBERON:0004533	66.34	gold quality
lower esophagus	UBERON:0013473	47.63	gold quality
lower esophagus muscularis layer	UBERON:0035833	47.62	gold quality
bone marrow cell	CL:0002092	44.21	gold quality
sural nerve	UBERON:0015488	40.69	gold quality
lymph node	UBERON:0000029	39.27	silver quality
apex of heart	UBERON:0002098	37.75	silver quality
C1 segment of cervical spinal cord	UBERON:0006469	37.73	silver quality
colonic epithelium	UBERON:0000397	37.20	gold quality
ganglionic eminence	UBERON:0004023	37.14	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	37.02	gold quality
muscle tissue	UBERON:0002385	36.51	silver quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
skeletal muscle tissue	UBERON:0001134	36.33	gold quality
calcaneal tendon	UBERON:0003701	36.19	gold quality
bone marrow	UBERON:0002371	35.86	gold quality
granulocyte	CL:0000094	35.83	gold quality
hindlimb stylopod muscle	UBERON:0004252	35.37	gold quality
substantia nigra	UBERON:0002038	35.19	silver quality
esophagus	UBERON:0001043	34.34	gold quality
putamen	UBERON:0001874	34.21	silver quality
prefrontal cortex	UBERON:0000451	33.52	gold quality
mucosa of stomach	UBERON:0001199	32.74	gold quality
leukocyte	CL:0000738	32.48	gold quality
monocyte	CL:0000576	32.38	gold quality
caudate nucleus	UBERON:0001873	31.52	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.14

Regulation

Is transcription factor: no

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
mus_musculus	Tex13c1	ENSMUSG00000078320
mus_musculus	Tex13d	ENSMUSG00000105993
rattus_norvegicus	Tex13c	ENSRNOG00000045953
rattus_norvegicus	LOC134484021	ENSRNOG00000057469
drosophila_melanogaster	CG14718	FBGN0037939

Paralogs (3): TEX13B (ENSG00000170925), TEX13A (ENSG00000268629), TEX13C (ENSG00000282815)

Protein

Protein identifiers

Testis-expressed protein 13D — A0A0J9YY54 (reviewed: A0A0J9YY54)

All UniProt accessions (1): A0A0J9YY54

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the TEX13 family.

RefSeq proteins (1): NP_001342463* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001876	Znf_RanBP2	Domain
IPR028193	TEX13A-D_N	Domain
IPR049367	TX13C/D_rpt	Repeat
IPR049534	TEX13A/C/D_Znf	Domain

Pfam: PF15186, PF20864, PF20868

UniProt features (11 total): compositionally biased region 7, region of interest 2, chain 1, zinc finger region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A0A0J9YY54-F1	49.64	0.12

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 2 (showing top): GOMF_MRNA_BINDING, chrXq25

GO Biological Process (0):

GO Molecular Function (3): mRNA binding (GO:0003729), zinc ion binding (GO:0008270), metal ion binding (GO:0046872)

GO Cellular Component (0):

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
RNA binding	1
transition metal ion binding	1
cation binding	1

Protein interactions and networks

STRING

254 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TEX13D	TEKTL1	Q8IYK2	512
TEX13D	OR5H2	Q8NGV7	507
TEX13D	EFCAB8	A8MWE9	506
TEX13D	OR5A2	Q8NGI9	478
TEX13D	TMEM208	Q9BTX3	433
TEX13D	TEX36	Q5VZQ5	413
TEX13D	GAS2L1	Q99501	403
TEX13D	TEX22	C9J3V5	394
TEX13D	TEX30	Q5JUR7	382
TEX13D	POTEE	Q6S8J3	370
TEX13D	MROH2B	Q7Z745	366
TEX13D	TEX28	O15482	363
TEX13D	HMGCLL1	Q8TB92	359
TEX13D	GTF3C2	Q8WUA4	353
TEX13D	SPMIP9	Q96LM6	351

IntAct

2 interactions, top by confidence:

A	B	Type	Score
DYRK1A	TEX13D	psi-mi:“MI:0914”(association)	0.350

ESM2 similar proteins: A0A087WUL8, A0A0J9YWL9, A0A0J9YY54, A0A0U1RQI7, A6NJ88, A6QL64, B4DH59, D3ZVV1, E9Q6E9, F1LWT0, O04492, O88799, P0DKJ7, P0DKJ8, P0DKL2, P0DPF3, P18583, P53353, Q08AG5, Q0P6D6, Q2EG98, Q3BBV2, Q4ZJZ1, Q5HY64, Q5JPF3, Q5QGU6, Q5TAG4, Q5TI25, Q5XHX6, Q6P3W6, Q6P902, Q6XPR3, Q6ZQX7, Q86T75, Q86VE3, Q86VQ3, Q8N2N9, Q8N660, Q8N693, Q96EQ9

Diamond homologs: A0A0J9YWL9, A0A0J9YY54, A2AFS9, D3YU32, Q9BXU2, Q9BXU3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	4
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

279 predictions. Top by Δscore:

Variant	Effect	Δscore
X:124335411:G:GT	donor_gain	0.9800
X:124335456:GCCAT:G	donor_gain	0.9800
X:124335407:TCATG:T	donor_gain	0.9700
X:124335403:G:GT	donor_gain	0.9600
X:124335502:A:G	donor_gain	0.9200
X:124335068:GGAAG:G	donor_gain	0.9100
X:124335069:GAAGG:G	donor_gain	0.9100
X:124335659:GGTGA:G	acceptor_gain	0.9000
X:124335071:AGGT:A	donor_loss	0.8900
X:124335072:GGT:G	donor_loss	0.8900
X:124335073:GT:G	donor_loss	0.8900
X:124335074:TAAG:T	donor_loss	0.8900
X:124335069:GAAG:G	donor_gain	0.8800
X:124335075:AAG:A	donor_loss	0.8600
X:124335076:AGT:A	donor_loss	0.8300
X:124335405:A:AG	donor_gain	0.8200
X:124335406:G:GG	donor_gain	0.8200
X:124335655:TATA:T	acceptor_loss	0.8200
X:124335656:ATAG:A	acceptor_loss	0.8200
X:124335658:A:AC	acceptor_loss	0.8200
X:124335659:G:GA	acceptor_loss	0.8200
X:124335804:G:GT	donor_gain	0.8200
X:124335646:T:A	acceptor_loss	0.8100
X:124335649:T:TA	acceptor_loss	0.8100
X:124335461:G:GG	donor_gain	0.7900
X:124335637:ATTTT:A	acceptor_loss	0.7900
X:124335649:T:A	acceptor_gain	0.7900
X:124335849:G:GT	donor_gain	0.7900
X:124333277:G:GA	donor_gain	0.7800
X:124335659:GGT:G	acceptor_gain	0.7800

AlphaMissense

4726 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
X:124332951:T:C	F12L	0.986
X:124332953:C:A	F12L	0.986
X:124332953:C:G	F12L	0.986
X:124333017:T:C	F34L	0.975
X:124333019:T:A	F34L	0.975
X:124333019:T:G	F34L	0.975
X:124332952:T:C	F12S	0.974
X:124332975:T:C	F20L	0.970
X:124332977:C:A	F20L	0.970
X:124332977:C:G	F20L	0.970
X:124333044:T:A	W43R	0.968
X:124333044:T:C	W43R	0.968
X:124333046:G:C	W43C	0.967
X:124333046:G:T	W43C	0.967
X:124333320:G:C	A135P	0.966
X:124334973:T:A	C686S	0.964
X:124334974:G:C	C686S	0.964
X:124333109:G:C	K64N	0.963
X:124333109:G:T	K64N	0.963
X:124334988:T:C	F691L	0.963
X:124334990:T:A	F691L	0.963
X:124334990:T:G	F691L	0.963
X:124335015:T:A	C700S	0.957
X:124335016:G:C	C700S	0.957
X:124333122:T:A	W69R	0.955
X:124333122:T:C	W69R	0.955
X:124334964:T:C	C683R	0.953
X:124333058:G:C	E47D	0.952
X:124333058:G:T	E47D	0.952
X:124333333:G:C	R139P	0.951

dbSNP variants (sampled 300 via entrez): RS1000419533 (X:124333916 G>A), RS1000534009 (X:124332364 G>A,C), RS1000754277 (X:124331414 G>A), RS1000827253 (X:124332876 C>A,T), RS1003707912 (X:124335522 A>G), RS1004124165 (X:124336117 C>T), RS1004659993 (X:124337141 G>A), RS1004722135 (X:124333234 C>G), RS1004962560 (X:124336522 G>C), RS1005117426 (X:124332905 G>A,C), RS1007401849 (X:124332911 A>G), RS1007479257 (X:124335738 C>T), RS1007567763 (X:124336669 G>T), RS1007928640 (X:124333328 T>C,G), RS1008626381 (X:124335138 T>C)

Disease associations

OMIM: gene MIM:301124 | 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)

Clinical trials (associated diseases)

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