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Atlas / Gene / SLC16A13

SLC16A13

gene
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Also known as MCT13

Summary

SLC16A13 (solute carrier family 16 member 13, HGNC:31037) is a protein-coding gene on chromosome 17p13.1, encoding Monocarboxylate transporter 13 (Q7RTY0). Proton-linked monocarboxylate transporter.

Predicted to enable monocarboxylic acid transmembrane transporter activity. Predicted to be involved in monocarboxylic acid transport and transmembrane transport. Located in Golgi apparatus and cytosol.

Source: NCBI Gene 201232 — RefSeq curated summary.

At a glance

  • GWAS associations: 3
  • Clinical variants (ClinVar): 49 total
  • MANE Select transcript: NM_201566

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:31037
Approved symbolSLC16A13
Namesolute carrier family 16 member 13
Location17p13.1
Locus typegene with protein product
StatusApproved
AliasesMCT13
Ensembl geneENSG00000174327
Ensembl biotypeprotein_coding
Entrez201232

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 1 protein_coding, 1 retained_intron

ENST00000308027, ENST00000575844

RefSeq mRNA: 1 — MANE Select: NM_201566 NM_201566

CCDS: CCDS11085

Canonical transcript exons

ENST00000308027 — 4 exons

ExonStartEnd
ENSE0000120381570381527038889
ENSE0000120381870367277036870
ENSE0000120382170397637040117
ENSE0000120382570360157036581

Expression profiles

Bgee: expression breadth ubiquitous, 128 present calls, max score 87.57.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 5.4311 / max 74.5482, expressed in 1602 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
1591022.52161252
1591012.10921105
1591030.8003351

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right lobe of liverUBERON:000111487.57gold quality
liverUBERON:000210785.90gold quality
duodenumUBERON:000211479.64gold quality
granulocyteCL:000009477.33gold quality
mucosa of transverse colonUBERON:000499176.86gold quality
lower esophagus mucosaUBERON:003583475.31gold quality
esophagus mucosaUBERON:000246974.84gold quality
adult mammalian kidneyUBERON:000008273.80gold quality
apex of heartUBERON:000209872.22gold quality
spleenUBERON:000210671.53gold quality
gall bladderUBERON:000211071.47gold quality
leukocyteCL:000073871.15gold quality
bloodUBERON:000017871.14gold quality
monocyteCL:000057670.67gold quality
stromal cell of endometriumCL:000225570.53gold quality
lymph nodeUBERON:000002970.43gold quality
kidneyUBERON:000211370.24gold quality
right lobe of thyroid glandUBERON:000111970.20gold quality
cortex of kidneyUBERON:000122570.09gold quality
islet of LangerhansUBERON:000000669.99gold quality
metanephros cortexUBERON:001053369.68gold quality
saliva-secreting glandUBERON:000104469.57gold quality
minor salivary glandUBERON:000183069.39gold quality
placentaUBERON:000198769.15gold quality
upper lobe of left lungUBERON:000895268.96gold quality
small intestineUBERON:000210868.89gold quality
skin of abdomenUBERON:000141668.51gold quality
left lobe of thyroid glandUBERON:000112068.36gold quality
small intestine Peyer’s patchUBERON:000345468.23gold quality
thyroid glandUBERON:000204668.05gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3no2.49

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

10 targeting SLC16A13, 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-96-5P99.9572.802140
HSA-MIR-391099.9571.132227
HSA-MIR-1213399.9271.822006
HSA-MIR-1271-5P99.9171.991972
HSA-MIR-506-3P99.8973.553057
HSA-MIR-124-3P99.8973.743043
HSA-MIR-371499.7170.742671
HSA-MIR-31-5P98.5868.351239
HSA-MIR-203A-5P96.3365.03714
HSA-MIR-286195.2465.471056

Literature-anchored findings (GeneRIF, showing 2)

  • Data identified three new loci for type 2 diabetes with genome-wide significance: MIR129-LEP, GPSM1 and SLC16A13. (PMID:23945395)
  • The Association between the rs312457 Genotype of the SLC16a13 Gene and Diabetes Mellitus in a Chinese Population. (PMID:34257700)

Cross-species orthologs

16 orthologs

OrganismSymbolGene ID
danio_rerioslc16a13ENSDARG00000055342
mus_musculusSlc16a13ENSMUSG00000044367
drosophila_melanogasterMct1FBGN0023549
drosophila_melanogasterCG14196FBGN0031002
drosophila_melanogasterCG8051FBGN0031012
drosophila_melanogasterSlnFBGN0033657
drosophila_melanogasterCG8468FBGN0033913
drosophila_melanogasterTargFBGN0033955
drosophila_melanogasterCG13907FBGN0035173
drosophila_melanogasteroutFBGN0259834
caenorhabditis_elegansWBGENE00003986
caenorhabditis_elegansWBGENE00010834
caenorhabditis_elegansWBGENE00015273
caenorhabditis_elegansWBGENE00015676
caenorhabditis_elegansWBGENE00020168
caenorhabditis_elegansWBGENE00021227

Paralogs (13): SLC16A8 (ENSG00000100156), SLC16A6 (ENSG00000108932), SLC16A10 (ENSG00000112394), SLC16A7 (ENSG00000118596), SLC16A3 (ENSG00000141526), SLC16A2 (ENSG00000147100), SLC16A12 (ENSG00000152779), SLC16A1 (ENSG00000155380), SLC16A14 (ENSG00000163053), SLC16A9 (ENSG00000165449), SLC16A4 (ENSG00000168679), SLC16A5 (ENSG00000170190), SLC16A11 (ENSG00000174326)

Protein

Protein identifiers

Monocarboxylate transporter 13 — Q7RTY0 (reviewed: Q7RTY0)

Alternative names: Solute carrier family 16 member 13

All UniProt accessions (1): Q7RTY0

UniProt curated annotations — full annotation on UniProt →

Function. Proton-linked monocarboxylate transporter. May catalyze the transport of monocarboxylates across the plasma membrane.

Subcellular location. Golgi apparatus membrane. Cell membrane.

Disease relevance. Type 2 diabetes mellitus (T2D) [MIM:125853] A multifactorial disorder of glucose homeostasis caused by a lack of sensitivity to insulin. Affected individuals usually have an obese body habitus and manifestations of a metabolic syndrome characterized by diabetes, insulin resistance, hypertension and hypertriglyceridemia. The disease results in long-term complications that affect the eyes, kidneys, nerves, and blood vessels. Disease susceptibility is associated with variants affecting the gene represented in this entry.

Similarity. Belongs to the major facilitator superfamily. Monocarboxylate porter (TC 2.A.1.13) family.

RefSeq proteins (1): NP_963860* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR011701MFSFamily
IPR020846MFS_domDomain
IPR036259MFS_trans_sfHomologous_superfamily
IPR048233MFS_MCT_13Family
IPR050327Proton-linked_MCTFamily

Pfam: PF07690

UniProt features (15 total): transmembrane region 12, topological domain 2, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q7RTY0-F187.210.68

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 58 (showing top): TGACCTY_ERR1_Q2, GOBP_ORGANIC_ACID_TRANSPORT, GOBP_ORGANIC_ANION_TRANSPORT, PU1_Q6, GOBP_MONOCARBOXYLIC_ACID_TRANSPORT, RYTTCCTG_ETS2_B, MEF2_Q6_01, P53_DECAMER_Q2, GOBP_TRANSMEMBRANE_TRANSPORT, ER_Q6_02, GOMF_ACTIVE_TRANSMEMBRANE_TRANSPORTER_ACTIVITY, GOMF_MONOCARBOXYLIC_ACID_TRANSMEMBRANE_TRANSPORTER_ACTIVITY, GOMF_SECONDARY_ACTIVE_TRANSMEMBRANE_TRANSPORTER_ACTIVITY, GOMF_SYMPORTER_ACTIVITY, GOMF_TRANSPORTER_ACTIVITY

GO Biological Process (2): monocarboxylic acid transport (GO:0015718), transmembrane transport (GO:0055085)

GO Molecular Function (4): monocarboxylic acid transmembrane transporter activity (GO:0008028), symporter activity (GO:0015293), protein binding (GO:0005515), transmembrane transporter activity (GO:0022857)

GO Cellular Component (5): Golgi membrane (GO:0000139), Golgi apparatus (GO:0005794), cytosol (GO:0005829), plasma membrane (GO:0005886), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cytoplasm2
cellular anatomical structure2
carboxylic acid transport1
transport1
cellular process1
monocarboxylic acid transport1
carboxylic acid transmembrane transporter activity1
secondary active transmembrane transporter activity1
binding1
transporter activity1
transmembrane transport1
Golgi apparatus1
bounding membrane of organelle1
endomembrane system1
intracellular membrane-bounded organelle1
membrane1
cell periphery1

Protein interactions and networks

STRING

630 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
SLC16A13BRD10Q5HYC2509
SLC16A13GPSM1Q86YR5505
SLC16A13SLC25A45Q8N413449
SLC16A13SLC5A9Q2M3M2447
SLC16A13C2CD4AQ8NCU7439
SLC16A13ERMP1Q7Z2K6412
SLC16A13RBM11P57052406
SLC16A13SLC5A12Q1EHB4388
SLC16A13LENG1Q96BZ8384
SLC16A13R3HDMLQ9H3Y0373
SLC16A13RFX8Q6ZV50367
SLC16A13C2CD4BA6NLJ0332
SLC16A13SLC25A30Q5SVS4329
SLC16A13OR14C36Q8NHC7328
SLC16A13UBE2E2Q96LR5327

IntAct

70 interactions, top by confidence:

ABTypeScore
SLC16A13SHISAL1psi-mi:“MI:0915”(physical association)0.560
CCNDBP1SLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC16A13CREB3L1psi-mi:“MI:0915”(physical association)0.560
SLC16A13JPH1psi-mi:“MI:0915”(physical association)0.560
SHISAL1SLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC10A1SLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC16A13psi-mi:“MI:0915”(physical association)0.560
BSGSLC16A13psi-mi:“MI:0915”(physical association)0.560
PTPN9SLC16A13psi-mi:“MI:0915”(physical association)0.560
HSD3B1SLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC16A13TMEM14Bpsi-mi:“MI:0915”(physical association)0.560
PGRMC2SLC16A13psi-mi:“MI:0915”(physical association)0.560
GJA8SLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC16A13FAM210Bpsi-mi:“MI:0915”(physical association)0.560
SLC16A13TMEM160psi-mi:“MI:0915”(physical association)0.560
CD79ASLC16A13psi-mi:“MI:0915”(physical association)0.560
TMEM50BSLC16A13psi-mi:“MI:0915”(physical association)0.560
SLC16A13ATP13A1psi-mi:“MI:0915”(physical association)0.560
SLC16A13SYNDIG1psi-mi:“MI:0915”(physical association)0.560
AQP6SLC16A13psi-mi:“MI:0915”(physical association)0.560
ERGIC3TMEM223psi-mi:“MI:0914”(association)0.350
SLC17A2PSMD11psi-mi:“MI:0914”(association)0.350
TTYH1TMEM223psi-mi:“MI:0914”(association)0.350
CRELD1TMEM223psi-mi:“MI:0914”(association)0.350
CLEC2DTMEM120Bpsi-mi:“MI:0914”(association)0.350
SLC5A4GPR89Apsi-mi:“MI:0914”(association)0.350
CMTM8UBXN8psi-mi:“MI:0914”(association)0.350
GPR12TLCD2psi-mi:“MI:0914”(association)0.350

BioGRID (37): SLC16A13 (Affinity Capture-MS), SLC16A13 (Affinity Capture-MS), SLC16A13 (Affinity Capture-MS), SLC16A13 (Affinity Capture-RNA), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid), SLC16A13 (Two-hybrid)

ESM2 similar proteins: A4QN56, B1AT66, B2RXV4, D4A734, G8XYX6, M0RCI4, O00476, O15374, O15403, O70324, P0DX21, P36021, P46720, Q17QN9, Q17QR6, Q32NG5, Q503M4, Q5BIZ0, Q5NCM1, Q5R5M4, Q5RCN7, Q5ZJU0, Q66HE2, Q66KG0, Q6GM59, Q6P2X9, Q6PDC8, Q6ZSM3, Q7RTX9, Q7RTY0, Q7RTY1, Q7SXB7, Q7TM99, Q7TMR7, Q86VW1, Q8BGC3, Q8CE94, Q8HYW2, Q8K1C7, Q8K1P8

Diamond homologs: A0LNN5, B1AT66, I1RV24, O15375, O15403, O15427, O35440, O35910, O60669, O70451, O95907, P53985, P53986, P53987, P53988, P57787, P57788, Q03064, Q17QR6, Q3MHW6, Q63344, Q66HE2, Q7RTY0, Q7TMR7, Q8CE94, Q90632, D4A734, G5E8K6, O15374, O35308, O70461, Q503M4, Q5NC32, Q6GM59, Q6P2X9, Q6ZSM3, Q8BGC3, Q8NCK7, Q8R0M8, M0RCI4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance42
Likely benign3
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

466 predictions. Top by Δscore:

VariantEffectΔscore
17:7036579:GGA:Gdonor_gain1.0000
17:7036580:GA:Gdonor_gain1.0000
17:7036580:GAG:Gdonor_gain1.0000
17:7036582:G:GGdonor_gain1.0000
17:7036621:G:GTdonor_gain1.0000
17:7036625:G:GTdonor_gain1.0000
17:7036647:G:GTdonor_gain1.0000
17:7036647:G:Tdonor_gain1.0000
17:7036568:GCAGC:Gdonor_gain0.9900
17:7036578:GGGA:Gdonor_gain0.9900
17:7036579:GGAG:Gdonor_gain0.9900
17:7036622:A:Tdonor_gain0.9900
17:7036626:G:Tdonor_gain0.9900
17:7036631:G:GTdonor_gain0.9900
17:7036632:G:Tdonor_gain0.9900
17:7036849:C:CGdonor_gain0.9900
17:7038887:CAGG:Cdonor_loss0.9900
17:7038888:AGG:Adonor_loss0.9900
17:7038890:G:GAdonor_loss0.9900
17:7039754:T:TAacceptor_gain0.9900
17:7036579:GGAGT:Gdonor_loss0.9800
17:7036581:AG:Adonor_loss0.9800
17:7036582:GTGA:Gdonor_loss0.9800
17:7036583:T:Adonor_loss0.9800
17:7036584:GAGT:Gdonor_loss0.9800
17:7036586:G:GGdonor_gain0.9800
17:7036627:A:Tdonor_gain0.9800
17:7036653:G:GTdonor_gain0.9800
17:7036849:C:Gdonor_gain0.9800
17:7038150:A:AGacceptor_gain0.9800

AlphaMissense

2660 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
17:7038856:A:CS350R0.993
17:7038858:C:AS350R0.993
17:7038858:C:GS350R0.993
17:7038205:T:CF133L0.992
17:7038207:C:AF133L0.992
17:7038207:C:GF133L0.992
17:7036468:G:AG29E0.986
17:7036581:A:CS67R0.986
17:7036728:C:AS67R0.986
17:7036728:C:GS67R0.986
17:7036784:G:AG86E0.985
17:7038752:G:AG315D0.985
17:7036467:G:AG29R0.984
17:7036467:G:CG29R0.984
17:7036564:C:AA61E0.982
17:7038682:G:AG292R0.982
17:7038682:G:CG292R0.982
17:7038763:G:TG319W0.981
17:7038683:G:AG292E0.980
17:7038874:G:AG356R0.980
17:7038874:G:CG356R0.980
17:7038493:G:CG229R0.979
17:7038494:G:AG229D0.979
17:7036804:G:AG93R0.978
17:7036804:G:CG93R0.978
17:7036852:A:CS109R0.978
17:7036854:T:AS109R0.978
17:7036854:T:GS109R0.978
17:7038751:G:CG315R0.978
17:7038863:G:AG352E0.978

dbSNP variants (sampled 300 via entrez): RS1000378064 (17:7037293 G>C,T), RS1000524384 (17:7035152 T>C), RS1000539158 (17:7034524 C>T), RS1000673284 (17:7034847 C>T), RS1000701209 (17:7034933 G>A), RS1001280195 (17:7039429 C>A,G,T), RS1002203780 (17:7035896 A>G), RS1002278074 (17:7038090 G>C), RS1002673505 (17:7037956 G>A,T), RS1003263735 (17:7036555 T>C), RS1004265338 (17:7035327 A>G), RS1004399634 (17:7039251 T>G), RS1004768778 (17:7034080 C>G,T), RS1005241326 (17:7035843 T>C,G), RS1005306386 (17:7040465 G>A,T)

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

3 associations (top):

StudyTraitp-value
GCST002128_16Type 2 diabetes8.000000e-13
GCST002317_1Type 2 diabetes5.000000e-15
GCST003400_9Type 2 diabetes8.000000e-11

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 — SLC16 family of monocarboxylate transporters

CTD chemical–gene interactions

32 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
bisphenol Aincreases expression2
sodium arseniteincreases expression, decreases expression, increases abundance2
Benzo(a)pyrenedecreases expression, decreases methylation, increases methylation2
aristolochic acid Idecreases expression1
bisphenol Faffects cotreatment, increases expression1
quercitrindecreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
perfluorooctanoic acidincreases expression1
zinc chromatedecreases expression, increases abundance1
potassium chromate(VI)affects cotreatment, decreases expression1
ferrous chloridedecreases expression1
nickel sulfateincreases expression1
epigallocatechin gallateaffects cotreatment, decreases expression1
di-n-butylphosphoric acidaffects expression1
chromium hexavalent iondecreases expression, increases abundance1
CGP 52608affects binding, increases reaction1
abrinedecreases expression1
jinfukangaffects cotreatment, increases expression1
Sunitinibincreases expression1
Acetaminophendecreases expression1
Arsenicdecreases expression, increases abundance1
Cisplatinaffects cotreatment, increases expression1
Dexamethasoneaffects cotreatment, increases expression1
Diazinonincreases methylation1
Indomethacinaffects cotreatment, increases expression1
Fenofibrateincreases expression1
Smokedecreases expression1
Tobacco Smoke Pollutionincreases expression1
1-Methyl-3-isobutylxanthineaffects cotreatment, increases expression1
Aflatoxin B1decreases expression1

Cellosaurus cell lines

4 cell lines: 3 cancer cell line, 1 transformed cell line

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

CellosaurusNameCategorySex
CVCL_D4DQHEK-SLC16A13-KO-c2Transformed cell lineFemale
CVCL_D4I1HCT116-SLC16A13-KO-c4Cancer cell lineMale
CVCL_D4I2HCT116-SLC16A13-KO-c9Cancer cell lineMale
CVCL_TL65HAP1 SLC16A13 (-)Cancer 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.

About this page

Generated deterministically by Sugi Atlas from primary biomedical databases via BioBTree. Every record on this page traces to a primary source.

Generated
Atlas version
v1.1.4
BioBTree
v2.0.2

Sources 75

This page pulls from 75 datasets indexed by BioBTree:

alphafoldalphamissenseantibodybgeebgee_evidencebindingdbbiogrid_interactionbrendabrenda_kineticsccdscellosauruschembl_activitychembl_targetciviccivic_evidenceclingen_dosageclingen_gene_validityclinical_trialsclinvarcollectrictd_gene_interactiondbsnpdepmapdiamond_similarityefoensemblentrezesm2_similarityexonfantom5_genefantom5_promotergenccgenerifgogoparentgtopdbgtopdb_interactiongwasgwas_studyhgnchpointactinterprointogenjasparmeshmimmirdbmondomsigdborphanetorthologparalogpdbpfampharmgkb_clinicalpharmgkb_genepharmgkb_guidelinepharmgkb_variantpubchempubchem_activitypubchem_assaypubmedreactomerefseqrhearnacentralscxa_expressionscxa_gene_experimentsignorspliceaistring_interactiontranscriptufeatureuniprot