SLC35B4

gene
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Also known as FLJ14697YEA4

Summary

SLC35B4 (solute carrier family 35 member B4, HGNC:20584) is a protein-coding gene on chromosome 7q33, encoding Nucleotide sugar transporter SLC35B4 (Q969S0). Antiporter that transports nucleotide sugars across the endoplasmic reticulum (ER) membrane in exchange for another nucleotide sugar.

Glycosyltransferases, such as SLC35B4, transport nucleotide sugars from the cytoplasm where they are synthesized, to the Golgi apparatus where they are utilized in the synthesis of glycoproteins, glycolipids, and proteoglycans (Ashikov et al., 2005 [PubMed 15911612]).

Source: NCBI Gene 84912 — RefSeq curated summary.

At a glance

  • GWAS associations: 4
  • Clinical variants (ClinVar): 55 total
  • MANE Select transcript: NM_032826

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:20584
Approved symbolSLC35B4
Namesolute carrier family 35 member B4
Location7q33
Locus typegene with protein product
StatusApproved
AliasesFLJ14697, YEA4
Ensembl geneENSG00000205060
Ensembl biotypeprotein_coding
OMIM610923
Entrez84912

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 7 protein_coding, 1 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000378509, ENST00000416907, ENST00000466599, ENST00000470969, ENST00000966638, ENST00000966639, ENST00000966640, ENST00000966641, ENST00000966642

RefSeq mRNA: 1 — MANE Select: NM_032826 NM_032826

CCDS: CCDS34756

Canonical transcript exons

ENST00000378509 — 10 exons

ExonStartEnd
ENSE00001477777134289332134295079
ENSE00001862876134316675134316930
ENSE00003516566134306672134306774
ENSE00003571149134300152134300261
ENSE00003579802134301761134301821
ENSE00003589580134309366134309479
ENSE00003616199134304805134304854
ENSE00003650607134296391134296466
ENSE00003654313134302029134302110
ENSE00003669927134299523134299598

Expression profiles

Bgee: expression breadth ubiquitous, 240 present calls, max score 91.12.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 13.4660 / max 106.0427, expressed in 1784 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter IDTPM avgSamples expressed
863118.82471760
863104.64141472

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
cerebellar vermisUBERON:000472091.12gold quality
middle temporal gyrusUBERON:000277191.07gold quality
kidney epitheliumUBERON:000481990.88gold quality
Brodmann (1909) area 23UBERON:001355489.37gold quality
endothelial cellCL:000011588.77gold quality
placentaUBERON:000198788.58gold quality
pigmented layer of retinaUBERON:000178287.43gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099186.72gold quality
tibiaUBERON:000097986.43gold quality
lateral nuclear group of thalamusUBERON:000273685.89gold quality
superior frontal gyrusUBERON:000266185.76gold quality
postcentral gyrusUBERON:000258185.72gold quality
parietal lobeUBERON:000187285.61gold quality
adrenal tissueUBERON:001830385.43gold quality
primary visual cortexUBERON:000243684.84gold quality
epithelial cell of pancreasCL:000008384.72gold quality
occipital lobeUBERON:000202184.63gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047384.49gold quality
entorhinal cortexUBERON:000272884.44gold quality
cerebellumUBERON:000203784.29gold quality
stromal cell of endometriumCL:000225583.95gold quality
cerebellar cortexUBERON:000212983.80gold quality
cerebellar hemisphereUBERON:000224583.61gold quality
prefrontal cortexUBERON:000045183.35gold quality
visceral pleuraUBERON:000240183.13gold quality
liverUBERON:000210783.10gold quality
Brodmann (1909) area 46UBERON:000648383.04gold quality
kidneyUBERON:000211382.97gold quality
right hemisphere of cerebellumUBERON:001489082.87gold quality
metanephrosUBERON:000008182.61gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes4.98

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

159 targeting SLC35B4, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-200B-3P100.0073.312693
HSA-MIR-200C-3P100.0073.352685
HSA-MIR-429100.0073.442698
HSA-MIR-8485100.0077.574731
HSA-MIR-4673100.0066.641490
HSA-MIR-30A-5P100.0076.313233
HSA-MIR-30B-5P100.0076.293248
HSA-MIR-30C-5P100.0076.293248
HSA-MIR-30D-5P100.0076.323233
HSA-MIR-30E-5P100.0076.323242
HSA-MIR-1252-5P100.0069.802774
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-4668-3P100.0068.742635
HSA-MIR-5193100.0067.261744
HSA-MIR-9-5P100.0072.282361
HSA-MIR-318599.9968.121959
HSA-MIR-453199.9969.703181
HSA-MIR-513B-5P99.9969.962150
HSA-MIR-150-5P99.9966.691976
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-4789-3P99.9970.752484
HSA-MIR-4645-5P99.9865.811284
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-1213699.9872.815713
HSA-MIR-548P99.9872.253784
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-60799.9773.625593
HSA-MIR-568899.9673.234504
HSA-MIR-495-3P99.9672.814197

Literature-anchored findings (GeneRIF, showing 7)

  • Transport capabilities for UDP-Glc and UDP-Xyl were determined with Golgi vesicles isolated from transformed cells (PMID:15911612)
  • Decreased SLC35B4 expression led to increased gluconeogenesis in HepG2 cells. (PMID:21507882)
  • subcellular localization of SLC35B4 (PMID:21918738)
  • SLC35B4 single nucleotide polymorphism rs1646724 was associated with recurrence in patients with localized disease and survival in patients with advanced prostate cancer. (PMID:29682886)
  • Glucose levels activate SLC35B4 expression. This triggers a downstream effect via Hsp60 and other proteins. We hypothesize that the downstream effect on the proteins is mediated via altering the glycosylation pattern inside liver cells (PMID:29867058)
  • Our data showed that knock-out of the SLC35B4 gene does not affect major UDP-Xyl- and UDP-GlcNAc-dependent glycosylation pathways. (PMID:30458018)
  • A novel YAP1/SLC35B4 axis promotes gastric cancer (GC) development and progression, and this axis could be a potential candidate for prognosis and therapeutics in GC. (PMID:31175271)

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
danio_rerioslc35b4ENSDARG00000071087
mus_musculusSlc35b4ENSMUSG00000018999
rattus_norvegicusSlc35b4ENSRNOG00000008851
drosophila_melanogasterEfrFBGN0029849
drosophila_melanogasterCG14511FBGN0039641
caenorhabditis_elegansWBGENE00017480

Paralogs (3): SLC35B1 (ENSG00000121073), SLC35B3 (ENSG00000124786), SLC35B2 (ENSG00000157593)

Protein

Protein identifiers

Nucleotide sugar transporter SLC35B4Q969S0 (reviewed: Q969S0)

Alternative names: Solute carrier family 35 member B4, UDP-xylose and UDP-N-acetylglucosamine transporter, YEA4 homolog

All UniProt accessions (2): Q969S0, F8WAW0

UniProt curated annotations — full annotation on UniProt →

Function. Antiporter that transports nucleotide sugars across the endoplasmic reticulum (ER) membrane in exchange for another nucleotide sugar. May couple UDP-alpha-D-glucuronate (UDP-GlcA) or UDP-alpha-D-xylose (UDP-Xyl) efflux to UDP-alpha-D-glucuronate (UDP-GlcA) influx into the ER lumen, which in turn stimulates glucuronidation and excretion of endobiotics and xenobiotics. Has UDP-GlcA:UDP-GlcNAc antiporter activity. Has UDP-GlcA:UDP-GlcNAc antiporter activity.

Subcellular location. Endoplasmic reticulum membrane.

Similarity. Belongs to the nucleotide-sugar transporter family. SLC35B subfamily.

Isoforms (3)

UniProt IDNamesCanonical?
Q969S0-11yes
Q969S0-22
Q969S0-33

RefSeq proteins (1): NP_116215* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR013657HUT1Family

Pfam: PF08449

Catalyzed reactions (Rhea), 2 shown:

  • UDP-N-acetyl-alpha-D-glucosamine(in) + UDP-alpha-D-glucuronate(out) = UDP-N-acetyl-alpha-D-glucosamine(out) + UDP-alpha-D-glucuronate(in) (RHEA:73703)
  • UDP-alpha-D-xylose(in) + UDP-alpha-D-glucuronate(out) = UDP-alpha-D-xylose(out) + UDP-alpha-D-glucuronate(in) (RHEA:74831)

UniProt features (23 total): transmembrane region 11, splice variant 4, sequence conflict 4, mutagenesis site 2, chain 1, short sequence motif 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q969S0-F186.730.64

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Mutagenesis-validated functional residues (2):

PositionPhenotype
329results in loss of er retention signal and relocalization at the golgi apparatus.
330results in loss of er retention signal and relocalization at the golgi apparatus.

Function

Pathways and Gene Ontology

Reactome pathways

4 pathways

IDPathway
R-HSA-727802Transport of nucleotide sugars
R-HSA-382551Transport of small molecules
R-HSA-425397Transport of vitamins, nucleosides, and related molecules
R-HSA-425407SLC-mediated transmembrane transport

MSigDB gene sets: 134 (showing top): MONNIER_POSTRADIATION_TUMOR_ESCAPE_UP, GOBP_ORGANOPHOSPHATE_ESTER_TRANSPORT, GOBP_SMALL_MOLECULE_BIOSYNTHETIC_PROCESS, GOBP_REGULATION_OF_CARBOHYDRATE_METABOLIC_PROCESS, GOBP_MONOSACCHARIDE_BIOSYNTHETIC_PROCESS, GOMF_NUCLEOBASE_CONTAINING_COMPOUND_TRANSMEMBRANE_TRANSPORTER_ACTIVITY, GOBP_NUCLEOBASE_CONTAINING_COMPOUND_TRANSPORT, GOBP_CARBOHYDRATE_METABOLIC_PROCESS, GOBP_ORGANIC_ANION_TRANSPORT, GOBP_REGULATION_OF_GLUCOSE_METABOLIC_PROCESS, GOBP_GLUCOSE_METABOLIC_PROCESS, GOBP_REGULATION_OF_CARBOHYDRATE_BIOSYNTHETIC_PROCESS, GOBP_MONOSACCHARIDE_METABOLIC_PROCESS, BIDUS_METASTASIS_UP, ACEVEDO_METHYLATED_IN_LIVER_CANCER_DN

GO Biological Process (4): regulation of gluconeogenesis (GO:0006111), UDP-xylose transmembrane transport (GO:0015790), UDP-N-acetylglucosamine transmembrane transport (GO:1990569), transmembrane transport (GO:0055085)

GO Molecular Function (3): UDP-N-acetylglucosamine transmembrane transporter activity (GO:0005462), UDP-xylose transmembrane transporter activity (GO:0005464), protein binding (GO:0005515)

GO Cellular Component (6): Golgi membrane (GO:0000139), endoplasmic reticulum (GO:0005783), endoplasmic reticulum membrane (GO:0005789), Golgi apparatus (GO:0005794), endomembrane system (GO:0012505), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-3 pathways:

CategoryPathways
Transport of vitamins, nucleosides, and related molecules1
SLC-mediated transmembrane transport1
Transport of small molecules1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
pyrimidine nucleotide-sugar transmembrane transport2
pyrimidine nucleotide-sugar transmembrane transporter activity2
cytoplasm2
endomembrane system2
intracellular membrane-bounded organelle2
cellular anatomical structure2
gluconeogenesis1
regulation of glucose metabolic process1
regulation of carbohydrate biosynthetic process1
transport1
cellular process1
UDP-N-acetylglucosamine transmembrane transport1
UDP-xylose transmembrane transport1
binding1
Golgi apparatus1
bounding membrane of organelle1
organelle membrane1
nuclear outer membrane-endoplasmic reticulum membrane network1
endoplasmic reticulum subcompartment1
vacuole1
plasma membrane1

Protein interactions and networks

STRING

842 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
SLC35B4SLC35A3Q9Y2D2920
SLC35B4SLC35D2Q76EJ3918
SLC35B4SLC35D1Q9NTN3894
SLC35B4SLC35D3Q5M8T2883
SLC35B4SLC35H1Q9NQQ7715
SLC35B4SLC35A5Q9BS91673
SLC35B4SLC35C1Q96A29649
SLC35B4SLC35E1Q96K37607
SLC35B4SLC35A1P78382566
SLC35B4SLC35A4Q96G79554
SLC35B4SLC35F1Q5T1Q4528
SLC35B4SLC35F6Q8N357491
SLC35B4SLC35B2Q8TB61474
SLC35B4CHID1Q9BWS9453
SLC35B4COASYQ13057443

IntAct

103 interactions, top by confidence:

ABTypeScore
CREB3L1SLC35B4psi-mi:“MI:0915”(physical association)0.720
SLC35B4CREB3L1psi-mi:“MI:0915”(physical association)0.720
SLC35B4FFAR2psi-mi:“MI:0915”(physical association)0.560
SLC35B4PDZK1IP1psi-mi:“MI:0915”(physical association)0.560
SLC35B4PVRpsi-mi:“MI:0915”(physical association)0.560
SLC35B4FAM210Bpsi-mi:“MI:0915”(physical association)0.560
KASH5SLC35B4psi-mi:“MI:0915”(physical association)0.560
SLC35B4TMEM237psi-mi:“MI:0915”(physical association)0.560
SCARA5SLC35B4psi-mi:“MI:0915”(physical association)0.560
SLC35B4RHBDL2psi-mi:“MI:0915”(physical association)0.560
LHFPL5SLC35B4psi-mi:“MI:0915”(physical association)0.560
TYROBPSLC35B4psi-mi:“MI:0915”(physical association)0.560
STOMSLC35B4psi-mi:“MI:0915”(physical association)0.560
CISD2SLC35B4psi-mi:“MI:0915”(physical association)0.560
CLDN5SLC35B4psi-mi:“MI:0915”(physical association)0.560
ERP29SLC35B4psi-mi:“MI:0915”(physical association)0.560
TBXA2RSLC35B4psi-mi:“MI:0915”(physical association)0.560
SLC35B4VSIRpsi-mi:“MI:0915”(physical association)0.560
EBAG9SLC35B4psi-mi:“MI:0915”(physical association)0.560
SLC35B4ERGIC3psi-mi:“MI:0915”(physical association)0.560
MUC1SLC35B4psi-mi:“MI:0915”(physical association)0.560
FFAR2SLC35B4psi-mi:“MI:0915”(physical association)0.560
PDZK1IP1SLC35B4psi-mi:“MI:0915”(physical association)0.560
PVRSLC35B4psi-mi:“MI:0915”(physical association)0.560

BioGRID (143): CREB3L1 (Two-hybrid), SLC35B4 (Affinity Capture-RNA), SLC35B4 (Proximity Label-MS), SLC35B4 (Two-hybrid), SLC35B4 (Synthetic Lethality), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid), SLC35B4 (Two-hybrid)

ESM2 similar proteins: A1C9R4, A1CZJ3, A1DA52, A2R9P4, A3LWX1, A4RM13, A5DIN8, A6RJQ8, A6ZTW6, A7E558, A7TES5, A7TR80, A8N9T6, B0DI84, B0Y384, B3LHR7, B3LS51, B5VHH5, C7GSI5, C7GUZ7, C8Z742, C8Z830, P0CE11, P0CS02, P0CS03, P0CS04, P0CS05, P40107, Q0CA27, Q0UG89, Q1DTI4, Q2AAF6, Q2HA88, Q2UTL1, Q4WTQ6, Q5A477, Q5AQY2, Q5AS82, Q5R8M3, Q6C0U0

Diamond homologs: O74750, P40004, Q00974, Q5R8M3, Q7ZW46, Q869W7, Q8CIA5, Q95KB4, Q969S0, Q9W429

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance38
Likely benign3
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1558 predictions. Top by Δscore:

VariantEffectΔscore
7:134296333:T:Adonor_gain1.0000
7:134299522:CCAGA:Cdonor_gain1.0000
7:134299595:CGTG:Cacceptor_gain1.0000
7:134299599:C:CCacceptor_gain1.0000
7:134300150:A:ACdonor_gain1.0000
7:134300151:C:CCdonor_gain1.0000
7:134300168:T:TAdonor_gain1.0000
7:134306670:A:ACdonor_gain1.0000
7:134306671:C:CCdonor_gain1.0000
7:134306671:CG:Cdonor_gain1.0000
7:134306671:CGG:Cdonor_gain1.0000
7:134306671:CGGA:Cdonor_gain1.0000
7:134306671:CGGAT:Cdonor_gain1.0000
7:134306770:AGTAC:Aacceptor_gain1.0000
7:134306771:GTAC:Gacceptor_gain1.0000
7:134306772:TAC:Tacceptor_gain1.0000
7:134306775:C:CCacceptor_gain1.0000
7:134306775:C:CGacceptor_loss1.0000
7:134306776:T:Cacceptor_loss1.0000
7:134309360:CCATA:Cdonor_loss1.0000
7:134309361:CATAC:Cdonor_loss1.0000
7:134309363:TA:Tdonor_loss1.0000
7:134309364:ACCTT:Adonor_loss1.0000
7:134309365:C:Adonor_loss1.0000
7:134310351:T:TAdonor_gain1.0000
7:134310354:T:TAdonor_gain1.0000
7:134299597:TG:Tacceptor_gain0.9900
7:134299601:A:Cacceptor_gain0.9900
7:134300146:GCTT:Gdonor_loss0.9900
7:134300147:CTTAC:Cdonor_loss0.9900

AlphaMissense

2187 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
7:134294989:G:CS280R1.000
7:134294989:G:TS280R1.000
7:134294991:T:GS280R1.000
7:134294987:A:GL281P0.999
7:134295003:G:TR276S0.999
7:134295070:G:CC253W0.999
7:134295071:C:TC253Y0.999
7:134302067:C:GG130R0.999
7:134302067:C:TG130R0.999
7:134306735:G:CS77R0.999
7:134306735:G:TS77R0.999
7:134306737:T:GS77R0.999
7:134309437:A:CF40L0.999
7:134309437:A:TF40L0.999
7:134309439:A:GF40L0.999
7:134294912:C:TG306E0.998
7:134294913:C:GG306R0.998
7:134294913:C:TG306R0.998
7:134294934:C:GG299R0.998
7:134295002:C:GR276P0.998
7:134295005:A:GL275P0.998
7:134295050:A:GL260P0.998
7:134295055:A:CF258L0.998
7:134295055:A:TF258L0.998
7:134295057:A:GF258L0.998
7:134295072:A:GC253R0.998
7:134296402:G:CN246K0.998
7:134296402:G:TN246K0.998
7:134302063:A:TI131K0.998
7:134302066:C:TG130E0.998

dbSNP variants (sampled 300 via entrez): RS1000055467 (7:134314811 G>C), RS1000061829 (7:134308754 C>T), RS1000411109 (7:134318157 T>A), RS1000559329 (7:134319401 T>A,C), RS1000571595 (7:134300961 G>A,C), RS1000664086 (7:134292901 C>G), RS1000672389 (7:134307022 C>T), RS1000714120 (7:134311809 T>A,C), RS1000740359 (7:134305405 T>C), RS1001129295 (7:134318696 C>T), RS1001265041 (7:134318950 T>C,G), RS1001273880 (7:134296709 G>T), RS1001388207 (7:134310905 G>A), RS1001470865 (7:134317207 A>G), RS1001585082 (7:134317770 G>C)

Disease associations

OMIM: gene MIM:610923 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

4 associations (top):

StudyTraitp-value
GCST004599_59Mean platelet volume4.000000e-20
GCST009645_2Systolic blood pressure response to thiazide and thiazide-like diuretics in hypertension5.000000e-08
GCST90002395_702Mean platelet volume4.000000e-36
GCST90002400_55Plateletcrit5.000000e-09

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0006944systolic blood pressure change measurement
EFO:0007985platelet crit

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

GtoPdb / IUPHAR curated pharmacology

(IUPHAR/BPS Guide to Pharmacology — expert-curated)

Target class: transporter — SLC35 family of nucleotide sugar transporters

CTD chemical–gene interactions

22 total (human), top 22 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, decreases methylation, increases expression4
Cyclosporinedecreases expression2
triphenyl phosphateaffects expression1
methylparabendecreases expression1
sodium arsenitedecreases expression1
butyraldehydedecreases expression1
CGP 52608affects binding, increases reaction1
abrinedecreases expression1
Temozolomidedecreases expression1
Acetaminophendecreases expression1
Air Pollutantsincreases abundance, decreases expression1
Benzo(a)pyrenedecreases methylation1
Cisplatindecreases expression1
Diurondecreases expression1
Environmental Pollutantsaffects expression1
Tretinoindecreases expression1
Urethanedecreases expression1
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxidedecreases expression1
Zidovudineincreases expression1
Copper Sulfatedecreases expression1
Acrylamidedecreases expression1
Particulate Matterdecreases expression, increases abundance1

Cellosaurus cell lines

4 cell lines: 4 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_D4M3HCT116-SLC35B4-KO-c10Cancer cell lineMale
CVCL_D4M4HCT116-SLC35B4-KO-c7Cancer cell lineMale
CVCL_TN12HAP1 SLC35B4 (-) 1Cancer cell lineMale
CVCL_TN13HAP1 SLC35B4 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

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

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.