DLK1

gene
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Also known as FA1pG2Pref-1ZOGDelta1

Summary

DLK1 (delta like non-canonical Notch ligand 1, HGNC:2907) is a protein-coding gene on chromosome 14q32.2, encoding Protein delta homolog 1 (P80370). May have a role in neuroendocrine differentiation.

This gene encodes a transmembrane protein that contains multiple epidermal growth factor repeats that functions as a regulator of cell growth. The encoded protein is involved in the differentiation of several cell types including adipocytes. This gene is located in a region of chromosome 14 frequently showing unparental disomy, and is imprinted and expressed from the paternal allele. A single nucleotide variant in this gene is associated with child and adolescent obesity and shows polar overdominance, where heterozygotes carrying an active paternal allele express the phenotype, while mutant homozygotes are normal.

Source: NCBI Gene 8788 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): central precocious puberty (Strong, GenCC)
  • GWAS associations: 20
  • Clinical variants (ClinVar): 94 total — 2 pathogenic, 1 likely-pathogenic
  • Phenotypes (HPO): 169
  • Druggable target: yes — 15 molecules with ChEMBL bioactivity
  • Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_003836

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:2907
Approved symbolDLK1
Namedelta like non-canonical Notch ligand 1
Location14q32.2
Locus typegene with protein product
StatusApproved
AliasesFA1, pG2, Pref-1, ZOG, Delta1
Ensembl geneENSG00000185559
Ensembl biotypeprotein_coding
OMIM176290
Entrez8788

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 5 protein_coding, 1 retained_intron

ENST00000331224, ENST00000341267, ENST00000392848, ENST00000555747, ENST00000556051, ENST00000942991

RefSeq mRNA: 2 — MANE Select: NM_003836 NM_001317172, NM_003836

CCDS: CCDS81852, CCDS9963

Canonical transcript exons

ENST00000341267 — 5 exons

ExonStartEnd
ENSE00001300094100728936100729066
ENSE00001315826100732042100732183
ENSE00001320288100728396100728459
ENSE00002436630100734149100738224
ENSE00003837497100726892100727135

Expression profiles

Bgee: expression breadth ubiquitous, 199 present calls, max score 99.81.

FANTOM5 (CAGE): breadth broad, TPM avg 54.8585 / max 9024.3477, expressed in 428 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter IDTPM avgSamples expressed
14148252.0521403
1414831.5509260
1414840.6336183
1414850.2359101
1414880.170870
1414890.148461
1414860.066734

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right adrenal gland cortexUBERON:003582799.81gold quality
right adrenal glandUBERON:000123399.78gold quality
adrenal cortexUBERON:000123599.78gold quality
left adrenal glandUBERON:000123499.76gold quality
left adrenal gland cortexUBERON:003582599.76gold quality
adrenal tissueUBERON:001830399.60gold quality
adenohypophysisUBERON:000219699.56gold quality
pituitary glandUBERON:000000799.40gold quality
cartilage tissueUBERON:000241898.99gold quality
adrenal glandUBERON:000236998.26gold quality
type B pancreatic cellCL:000016998.00gold quality
gluteal muscleUBERON:000200097.92gold quality
left ovaryUBERON:000211996.49gold quality
placentaUBERON:000198795.00gold quality
parotid glandUBERON:000183193.33gold quality
body of tongueUBERON:001187693.28gold quality
ovaryUBERON:000099293.15gold quality
right ovaryUBERON:000211893.09gold quality
islet of LangerhansUBERON:000000691.65gold quality
heart right ventricleUBERON:000208091.45gold quality
triceps brachiiUBERON:000150990.55gold quality
biceps brachiiUBERON:000150788.83gold quality
tongueUBERON:000172388.09gold quality
adult organismUBERON:000702387.55gold quality
right testisUBERON:000453487.46gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450287.34gold quality
testisUBERON:000047387.27gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099186.85gold quality
left testisUBERON:000453386.59gold quality
vastus lateralisUBERON:000137986.33gold quality

Single-cell (SCXA)

Detected in 22 experiment(s), a significant marker in 22.

ExperimentMarker?Max mean expression
E-MTAB-9154yes17705.82
E-MTAB-6701yes14733.61
E-HCAD-24yes10193.41
E-MTAB-7407yes6467.20
E-MTAB-10018yes4815.72
E-CURD-112yes4613.40
E-MTAB-10042yes3113.81
E-HCAD-23yes2699.36
E-MTAB-5061yes2628.40
E-MTAB-8221yes2081.27
E-GEOD-81547yes1840.32
E-HCAD-31yes1562.91
E-GEOD-93593yes1505.83
E-GEOD-81608yes900.64
E-ENAD-27yes748.19

Regulation

Is transcription factor: yes

Downstream targets (CollecTRI)

1 targets.

TargetRegulation
SOX9Unknown

Upstream regulators (CollecTRI, top): BMP7, CEBPD, CTCF, E2F1, EGR1, FOXA2, FOXC1, KLF2, KLF6, MSX1, NEUROG2, NR4A2, PITX3, PPARG, RBPJ, SP1, SP3, SREBF1, TFAP2A

miRNA regulators (miRDB)

220 targeting DLK1, 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-5196-5P100.0067.982761
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-126-5P100.0072.713180
HSA-MIR-4425100.0067.591049
HSA-MIR-6748-5P100.0065.811057
HSA-MIR-8485100.0077.574731
HSA-MIR-6856-5P100.0065.471298
HSA-MIR-6867-5P100.0082.213464
HSA-MIR-3064-3P100.0070.091254
HSA-MIR-4476100.0068.182030
HSA-MIR-6876-5P100.0067.682126
HSA-MIR-4533100.0069.482758
HSA-MIR-548AW99.9972.573559
HSA-MIR-10401-5P99.9965.79948
HSA-MIR-6870-5P99.9968.552115
HSA-MIR-520G-5P99.9966.76658
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-548P99.9872.253784
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-50799.9770.111915
HSA-MIR-4723-5P99.9768.702034
HSA-MIR-569899.9768.492029
HSA-MIR-7111-5P99.9768.482062
HSA-MIR-6825-5P99.9669.813431
HSA-MIR-55799.9670.011640
HSA-MIR-4725-3P99.9669.532520
HSA-MIR-6780B-5P99.9669.602562
HSA-MIR-448799.9664.581252
HSA-MIR-1468-3P99.9672.743797

Functional genomics

ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 40)

  • DLK1 gene is imprinted, with preferential expression from the paternal allele. (PMID:11076856)
  • Retroviral mediated expression of the human myeloid nuclear antigen in a null cell line upregulates Dlk1 expression (PMID:12112016)
  • delta-like 1 expression in a subset of neuroblastoma cell lines corresponds to a differentiated chromaffin cell type (PMID:12672031)
  • The mRNA expression level of the gene delta-like (Dlk) was measured using real-time PCR methodology in a large series of control biopsies and bone marrow trephines from patients with myelodysplastic syndrome and related myeloid disorders. (PMID:15289021)
  • Dlk may regulate the endothelial function in neuroblastic tumors. (PMID:15605081)
  • DLK1 has activity both as a soluble and a transmembrane expressed protein (PMID:15806146)
  • Dlk1 is overexpressed in selected samples of MDS (especially RA and RAEB) and AML (particularly M6, M7), and it appears to be associated with normal development of megakaryocytes and B cells. (PMID:15959531)
  • results suggest that DLK1 may play a role in the formation or progression of gliomas (PMID:16288219)
  • DLK1 variants in pituitary- and neuroendocrine tumors include Secredeltin, Brevideltin and Brevideltinin (PMID:16403460)
  • The regulation of expression, not splicing, is the most likely mechanism controlling the biological function of DLK1. (PMID:16901742)
  • role for Dlk1 in regulating the multiple biological functions of hMSC by influencing the composition of their microenvironment “niche.” (PMID:17182623)
  • the maternal UPD14 phenotype is due to aberrant gene expression within the imprinted domain at 14q32 (PMID:17601927)
  • Delta-like protein seems to be a highly sensitive and specific marker for hepatoblastomas. (PMID:18236070)
  • Monitoring dlk1 levels may be important to evaluate the metabolic and hormonal stage of child development. (PMID:18248640)
  • DLK1 was expressed in liver neoplasms. DLK1-positive patients had a shorter survival time than DLK1-negative patients. Cox regression analysis also showed that DLK1 is a risk factor. (PMID:18352842)
  • the novel prostate progenitor marker Dlk-1 is downregulated by Notch signalling in intermediate cells. The identification of Dlk-1-expressing candidate stem and neuroendocrine cells suggests a hierarchical relationship (PMID:18375047)
  • Associated with extreme early-onset obesity. (PMID:18398438)
  • four patients with clinical features of upd(14)mat who show a maternal-only methylation pattern, but biparental inheritance for chromosome 14. (PMID:18454453)
  • The expression of Dlk1 was found to be up-regulated in CD34+ cells from patients with myelodysplastic syndrome (MDS) by analyzing the gene expression profiles determined by microarray. (PMID:18575777)
  • Selective loss of MEG3 expression and intergenic differentially methylated region hypermethylation in the MEG3/DLK1 locus in human clinically nonfunctioning pituitary adenomas. (PMID:18628527)
  • Pref-1 is modulated by both dexamethasone and 3-isobutyl-1methylxanthine (IBMX), two components of the adipogenic induction mixture during the adipogenesis in vitro. (PMID:19427405)
  • PTTG1 and DLK1 are involved in cell differentiation and transformation. (PMID:19477929)
  • Pref-1 has roles in adipogenesis and mesenchymal cell fate [review] (PMID:19541743)
  • DLK is a novel immunohistochemical marker for adrenal gland tumors. (PMID:19685073)
  • DLK1 gene may be involved in leukemia, but the mRNA level of DLK1 has no relation with some clinical characteristics of AL patients at onset. (PMID:19779261)
  • designed allele-specific methylation study of the DLK1/GTL2 intergenic differentially methylated region allowed us to determine the parental origin of del(14q/IGH) in 9/20 analyzed cases. (PMID:19786834)
  • Because elevated DLK1 expression is found in many tumor types, our observations suggest that hypoxia and DLK1 may constitute an important stem cell pathway for the regulation of cancer stem cell-like functionality and tumorigenicity. (PMID:19934310)
  • Studies indicate the imprinted DLK1-MEG3 gene region of chromosome 14q32.2 contains a functional T1D candidate gene. (PMID:19966805)
  • The imprinted DLK1-MEG3 gene region of chromosome 14q32.2 is robustly associated with paternally inherited risk of type 1 diabetes. DLK1 is the most likely functional T1D candidate gene in the region. (PMID:19966805)
  • identified dlk1/FA1 as a novel marker of chondroprogenitor cells that undergo embryonic lineage progression from proliferation to the prehypertrophic stage. (PMID:20058200)
  • An insulator located 18 kb upstream of DLK1 plays an important role in regulating DLK1 imprinting. (PMID:20089961)
  • IFI16 may be an essential downstream target of DLK1 in hepatocellular carcinomas (HCC) cells and required for DLK1-induced cell proliferation. (PMID:20214740)
  • Constitutive overexpression of DLK-1/PREF1 in CB MSC resulted in a reduced adipogenic differentiation, whereas silencing of DLK-1 in USSC resulted in adipogenic differentiation. (PMID:20331358)
  • hDlk-1 is a cell surface protein expressed in many carcinomas. (PMID:20356822)
  • mRNA expressions of DLK1, c-FLIPL and c-FLIPS are abnormal in bone marrow mononuclear cells of myelodysplastic syndrome patients. (PMID:20561424)
  • dlk1’s expression in non-small cell lung cancers (PMID:20959062)
  • Adipose tissue in metabolically healthy obese individuals had lower levels of Pref-1, a known inhibitor of preadipocyte differentiation, and a more favorable inflammatory profile. (PMID:21252254)
  • coordinate up-regulation of the DLK1-DIO3 miRNA cluster at 14q32.2 may define a novel molecular (stem cell-like) subtype of hepatocellular carcinoma associated with poor prognosis (PMID:21737452)
  • A regulatory role for DLK1 in human and mouse neural progenitor differentiation and an interaction between DLK1 and Hes1-mediated Notch signaling in these cells, are reported. (PMID:21761283)
  • The DLK1-MEG3 locus plays a tumor suppressor role in human nonfunctioning adenomas. (PMID:21871428)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
mus_musculusDlk1ENSMUSG00000040856
rattus_norvegicusDlk1ENSRNOG00000019584
drosophila_melanogasterNimAFBGN0261514

Paralogs (1): PEAR1 (ENSG00000187800)

Protein

Protein identifiers

Protein delta homolog 1P80370 (reviewed: P80370)

Alternative names: pG2

All UniProt accessions (3): P80370, G3V2R7, G3XAH5

UniProt curated annotations — full annotation on UniProt →

Function. May have a role in neuroendocrine differentiation.

Subunit / interactions. Monomer. Interacts with SH3RF2.

Subcellular location. Membrane. Cytoplasm.

Tissue specificity. Found within the stromal cells in close contact to the vascular structure of placental villi, yolk sac, fetal liver, adrenal cortex and pancreas and in the beta cells of the islets of Langerhans in the adult pancreas. Found also in some forms of neuroendocrine lung tumor tissue.

Post-translational modifications. N- and O-glycosylated. O-glycosylated with core 1 or possibly core 8 glycans.

Isoforms (2)

UniProt IDNamesCanonical?
P80370-1Longyes
P80370-2Short

RefSeq proteins (2): NP_001304101, NP_003827* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000152EGF-type_Asp/Asn_hydroxyl_sitePTM
IPR000742EGFDomain
IPR001881EGF-like_Ca-bd_domDomain
IPR051022

Pfam: PF00008

UniProt features (50 total): disulfide bond 18, glycosylation site 11, domain 6, sequence variant 6, chain 2, topological domain 2, sequence conflict 2, signal peptide 1, transmembrane region 1, splice variant 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
9D20X-RAY DIFFRACTION2.67

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P80370-F170.550.14

Functional residue map

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

Disulfide bonds (18): 26–37, 30–43, 45–54, 57–68, 63–74, 76–85, 92–103, 97–113, 115–124, 131–144, 138–156, 158–167, 174–185, 179–194, 196–205, 212–223, 217–233, 235–244

Glycosylation sites (11): 94, 100, 143, 163, 165, 172, 214, 222, 251, 256, 260

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-2122948Activated NOTCH1 Transmits Signal to the Nucleus

MSigDB gene sets: 649 (showing top): GOBP_MYELOID_CELL_DIFFERENTIATION, VERHAAK_AML_WITH_NPM1_MUTATED_DN, REACTOME_SIGNALING_BY_NOTCH, MODULE_52, LEE_NEURAL_CREST_STEM_CELL_DN, GOBP_REGULATION_OF_OSTEOCLAST_DIFFERENTIATION, BENPORATH_ES_WITH_H3K27ME3, TSENG_IRS1_TARGETS_UP, GOBP_POSITIVE_REGULATION_OF_HEMOPOIESIS, PID_HNF3B_PATHWAY, GOBP_OSTEOBLAST_DIFFERENTIATION, GOBP_MYELOID_LEUKOCYTE_DIFFERENTIATION, GOBP_NEGATIVE_REGULATION_OF_NOTCH_SIGNALING_PATHWAY, MODULE_503, MODULE_66

GO Biological Process (7): cell differentiation (GO:0030154), negative regulation of ossification (GO:0030279), negative regulation of osteoblast differentiation (GO:0045668), positive regulation of osteoclast differentiation (GO:0045672), negative regulation of Notch signaling pathway (GO:0045746), positive regulation of bone resorption (GO:0045780), regulation of bone remodeling (GO:0046850)

GO Molecular Function (2): calcium ion binding (GO:0005509), protein binding (GO:0005515)

GO Cellular Component (3): obsolete extracellular space (GO:0005615), cytoplasm (GO:0005737), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Signaling by NOTCH11

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure2
cellular developmental process1
ossification1
regulation of ossification1
negative regulation of multicellular organismal process1
osteoblast differentiation1
negative regulation of cell differentiation1
regulation of osteoblast differentiation1
positive regulation of myeloid leukocyte differentiation1
osteoclast differentiation1
regulation of osteoclast differentiation1
Notch signaling pathway1
regulation of Notch signaling pathway1
negative regulation of signal transduction1
regulation of bone resorption1
bone resorption1
positive regulation of multicellular organismal process1
regulation of tissue remodeling1
bone remodeling1
metal ion binding1
binding1
intracellular anatomical structure1

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

12 interactions, top by confidence:

ABTypeScore
GRNDLK1psi-mi:“MI:0915”(physical association)0.560
DLK1SPRED1psi-mi:“MI:0915”(physical association)0.560
DLK1GRNpsi-mi:“MI:0915”(physical association)0.560
DLK1TCAF2psi-mi:“MI:0914”(association)0.530
DLK1SCAMP3psi-mi:“MI:0914”(association)0.530
DND1RPSA2psi-mi:“MI:0914”(association)0.350
DLK1PLPP3psi-mi:“MI:0914”(association)0.350

BioGRID (174): DLK1 (Two-hybrid), TUBB8 (Affinity Capture-MS), DCAKD (Affinity Capture-MS), ACVR2B (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), SMG8 (Affinity Capture-MS), ATP1A3 (Affinity Capture-MS), ATP12A (Affinity Capture-MS), NCLN (Affinity Capture-MS), TBC1D15 (Affinity Capture-MS), ATP13A1 (Affinity Capture-MS), TFRC (Affinity Capture-MS), NUP188 (Affinity Capture-MS), PTRH2 (Affinity Capture-MS), WDR44 (Affinity Capture-MS)

ESM2 similar proteins: A0JM12, A1A5Y0, A2VCU8, A6BM72, A6QR11, E9QJQ6, O42182, O70534, O88281, P23142, P35555, P35953, P80370, P97607, P98133, P98155, P98156, P98165, P98166, Q08879, Q09163, Q28832, Q2VWQ2, Q5R3Z7, Q5VY43, Q61220, Q61554, Q61555, Q62918, Q62919, Q6DIB5, Q7ZXL5, Q80T14, Q80T91, Q80V70, Q86XX4, Q8C088, Q8R4Y4, Q8VIK5, Q90827

Diamond homologs: A2RUV0, A4FV93, B2LW77, B8JI71, D3ZHH1, D3ZUK3, O35474, O70534, O88277, P10041, P21783, P31695, P78504, P80370, P97607, Q09163, Q2PZL6, Q5IJ48, Q5R6R1, Q5ZQU0, Q63722, Q6DCQ6, Q6QNF4, Q6UY11, Q6V0I7, Q70E20, Q8JZM4, Q8K1E3, Q8NFT8, Q8TER0, Q8VHS2, Q90Y54, Q90Y57, Q9JI71, Q9QXX0, Q9QYE5, Q9Y219, O43854, P18168, P82279

SIGNOR signaling

12 interactions.

AEffectBMechanism
KLF6“down-regulates quantity by repression”DLK1“transcriptional regulation”
DLK1up-regulatesFN1binding
BMP7“down-regulates quantity by repression”DLK1“transcriptional regulation”
DLK1“up-regulates quantity by expression”SOX9“transcriptional regulation”
DLK1down-regulatesAdipogenesis
DLK1up-regulatesSOX9“transcriptional regulation”
KLF6down-regulatesDLK1“transcriptional regulation”
BMP7down-regulatesDLK1“transcriptional regulation”
DLK1“down-regulates activity”NOTCH1binding
FOXA2“up-regulates quantity by expression”DLK1“transcriptional regulation”
E2F1“up-regulates quantity by expression”DLK1“transcriptional regulation”

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic2
Likely pathogenic1
Uncertain significance56
Likely benign20
Benign12

Top pathogenic / likely-pathogenic (3)

Variant IDHGVSClassification
162007NC_000014.9:g.100720531_100829298del108768Pathogenic
983280GRCh37/hg19 14q32.2(chr14:101201380-101290903)x1Pathogenic
2506570NM_003836.7(DLK1):c.357C>G (p.Tyr119Ter)Likely pathogenic

SpliceAI

554 predictions. Top by Δscore:

VariantEffectΔscore
14:100727136:G:GGdonor_gain1.0000
14:100727137:T:Adonor_loss1.0000
14:100732041:GAT:Gacceptor_gain1.0000
14:100727134:TG:Tdonor_gain0.9900
14:100727135:GG:Gdonor_gain0.9900
14:100732033:A:AGacceptor_gain0.9900
14:100732034:C:Gacceptor_gain0.9900
14:100732039:CAGAT:Cacceptor_loss0.9900
14:100732040:A:AGacceptor_gain0.9900
14:100732040:AGAT:Aacceptor_gain0.9900
14:100732041:G:Aacceptor_loss0.9900
14:100732041:G:GAacceptor_gain0.9900
14:100732041:GATG:Gacceptor_gain0.9900
14:100732182:GG:Gdonor_gain0.9900
14:100732183:GG:Gdonor_gain0.9900
14:100734147:A:AGacceptor_gain0.9900
14:100734148:G:GGacceptor_gain0.9900
14:100727131:CTATG:Cdonor_gain0.9800
14:100727132:TATG:Tdonor_gain0.9800
14:100727133:ATG:Adonor_gain0.9800
14:100727138:GAGT:Gdonor_loss0.9800
14:100732037:C:Aacceptor_gain0.9800
14:100732041:GA:Gacceptor_gain0.9800
14:100732161:G:GTdonor_gain0.9800
14:100732180:ACGGG:Adonor_loss0.9800
14:100732184:GT:Gdonor_loss0.9800
14:100732185:TAAA:Tdonor_loss0.9800
14:100734148:GCTC:Gacceptor_gain0.9800
14:100734148:GCTCC:Gacceptor_gain0.9800
14:100732033:ACCCC:Aacceptor_gain0.9700

AlphaMissense

2519 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
14:100734234:G:TG164C0.998
14:100734244:G:AC167Y0.998
14:100734243:T:AC167S0.997
14:100734244:G:CC167S0.997
14:100734297:T:AC185S0.997
14:100734298:G:CC185S0.997
14:100734298:G:AC185Y0.996
14:100734318:T:CF192L0.996
14:100734320:C:AF192L0.996
14:100734320:C:GF192L0.996
14:100734324:T:AC194S0.996
14:100734325:G:CC194S0.996
14:100734357:T:AC205S0.996
14:100734358:G:CC205S0.996
14:100734228:T:CF162L0.995
14:100734230:C:AF162L0.995
14:100734230:C:GF162L0.995
14:100734235:G:TG164V0.995
14:100734244:G:TC167F0.995
14:100734245:C:GC167W0.995
14:100734279:T:AC179S0.995
14:100734280:G:AC179Y0.995
14:100734280:G:CC179S0.995
14:100734297:T:CC185R0.995
14:100734319:T:GF192C0.995
14:100734342:T:CF200L0.995
14:100734344:C:AF200L0.995
14:100734344:C:GF200L0.995
14:100734358:G:AC205Y0.995
14:100734441:T:AC233S0.995

dbSNP variants (sampled 300 via entrez): RS1000048663 (14:100728089 T>C,G), RS1000099586 (14:100727376 G>C), RS1000244004 (14:100730825 A>C,G), RS1000316287 (14:100730642 G>C), RS1000348890 (14:100730345 C>A), RS1000401758 (14:100729471 G>A,C), RS1000491738 (14:100735552 C>G,T), RS1000841163 (14:100735787 A>G), RS1001215581 (14:100725082 G>A,T), RS1001464307 (14:100736797 A>C,T), RS1001525416 (14:100737989 G>C), RS1001526351 (14:100729827 C>T), RS1001717652 (14:100725214 C>A,G), RS1001832694 (14:100734979 C>A,T), RS1001888385 (14:100727813 A>G)

Disease associations

OMIM: gene MIM:176290 | disease phenotypes: MIM:180860, MIM:608149, MIM:176400

GenCC curated gene-disease

DiseaseClassificationInheritance
central precocious pubertyStrongAutosomal dominant

Mondo (3): Silver-Russell syndrome 1 (MONDO:0020796), paternal uniparental disomy of chromosome 14 (MONDO:0011975), central precocious puberty (MONDO:0019165)

Orphanet (5): Silver-Russell syndrome (Orphanet:813), Kagami-Ogata syndrome (Orphanet:254519), Kagami-Ogata syndrome due to paternal uniparental disomy of chromosome 14 (Orphanet:96334), Rare central precocious puberty (Orphanet:650063), NON RARE IN EUROPE: Central precocious puberty (Orphanet:759)

HPO phenotypes

169 total (30 of 169 shown, HPO-id order):

HPOTerm
HP:0000023Inguinal hernia
HP:0000028Cryptorchidism
HP:0000119Abnormality of the genitourinary system
HP:0000126Hydronephrosis
HP:0000158Macroglossia
HP:0000160Narrow mouth
HP:0000175Cleft palate
HP:0000193Bifid uvula
HP:0000194Open mouth
HP:0000218High palate
HP:0000252Microcephaly
HP:0000260Wide anterior fontanel
HP:0000278Retrognathia
HP:0000286Epicanthus
HP:0000293Full cheeks
HP:0000303Mandibular prognathia
HP:0000322Short philtrum
HP:0000327Hypoplasia of the maxilla
HP:0000337Broad forehead
HP:0000341Narrow forehead
HP:0000343Long philtrum
HP:0000347Micrognathia
HP:0000358Posteriorly rotated ears
HP:0000403Recurrent otitis media
HP:0000431Wide nasal bridge
HP:0000445Wide nose
HP:0000463Anteverted nares
HP:0000470Short neck
HP:0000490Deeply set eye
HP:0000565Esotropia

GWAS associations

20 associations (top):

StudyTraitp-value
GCST000539_2Type 1 diabetes1.000000e-10
GCST001337_43Platelet count3.000000e-08
GCST002541_100Menarche (age at onset)6.000000e-09
GCST002541_99Menarche (age at onset)9.000000e-15
GCST005991_35Platelet count2.000000e-10
GCST008362_77Birth weight1.000000e-12
GCST008839_191Height1.000000e-18
GCST009066_42Mosaic loss of chromosome Y (Y chromosome dosage)4.000000e-33
GCST009067_33Mosaic loss of chromosome Y (Y chromosome dosage)1.000000e-52
GCST009356_14Nonsyndromic cleft palate7.000000e-10
GCST009357_4Nonsyndromic cleft lip3.000000e-08
GCST009375_10Mosaic loss of chromosome Y (Y chromosome dosage)4.000000e-15
GCST009391_186Metabolite levels3.000000e-07
GCST009646_3Diastolic blood pressure response to thiazide and thiazide-like diuretics in hypertension4.000000e-08
GCST010002_160Refractive error3.000000e-10
GCST010118_99Type 2 diabetes7.000000e-11
GCST010988_546Adult body size3.000000e-10
GCST010989_67Body size at age 104.000000e-08
GCST012335_7Hodgkin’s lymphoma6.000000e-12
GCST90000025_201Appendicular lean mass5.000000e-11

EFO canonical traits (9, from GWAS)

EFO IDTrait name
EFO:0004309platelet count
EFO:0004703age at menarche
EFO:0004344birth weight
EFO:0007783mosaic loss of chromosome Y measurement
EFO:0003959cleft lip
EFO:0010482gamma-aminoisobutyric acid measurement
EFO:0006945diastolic blood pressure change measurement
EFO:0009819comparative body size at age 10, self-reported
EFO:0004980appendicular lean mass

MeSH disease descriptors (1)

DescriptorNameTree numbers
C536471Uniparental disomy, paternal, chromosome 14 (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5671 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

15 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 150,507 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

MoleculeNamePhasePatents
CHEMBL1287853FEDRATINIB43,554
CHEMBL1289926AXITINIB415,732
CHEMBL180022NERATINIB49,404
CHEMBL288441BOSUTINIB412,255
CHEMBL535SUNITINIB479,020
CHEMBL601719CRIZOTINIB414,403
CHEMBL290352CEP-13473359
CHEMBL522892DOVITINIB34,944
CHEMBL603469LESTAURTINIB3
CHEMBL1721885SU-0148132363
CHEMBL572878TOZASERTIB22,998
CHEMBL607707PELITINIB26,340
CHEMBL1908397KW-24491622
CHEMBL3732012GDC-0134162
CHEMBL574738AST-4871451

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

ChEMBL bioactivities

39 potent at pChembl≥5 of 39 total, top 35 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
9.77Ki0.17nMCHEMBL3355003
9.40Ki0.4nMCHEMBL3355005
9.00IC501nMCHEMBL4207983
8.70IC502nMCHEMBL5287658
8.40IC504nMCHEMBL5403790
8.40IC504nMCHEMBL5268969
8.20Ki6.3nMSUNITINIB
7.96IC5011nMGDC-0134
7.82Ki15nMCHEMBL5413922
7.60Ki25nMCHEMBL3393328
7.48Ki33nMCHEMBL3393324
7.45Ki35.8nMTOZASERTIB
7.38Kd42nMTAE-684
7.17Kd67nMKW-2449
7.16Kd70nMCHEMBL2436978
7.00Kd100nMSUNITINIB
6.96Ki110nMCHEMBL3355004
6.94IC50114nMCEP-1347
6.92IC50119nMCHEMBL4218417
6.84Ki145nMCHEMBL3629009
6.82IC50150nMCHEMBL2436978
6.77Kd170nMCRIZOTINIB
6.70IC50201nMCHEMBL5400272
6.57Ki270nMCHEMBL3355006
6.48Kd330nMCHEMBL1908842
6.43Kd370nMNERATINIB
6.25Kd560nMSU-014813
6.17Kd670nMBOSUTINIB
6.08Kd840nMLESTAURTINIB
5.77Kd1700nMAXITINIB
5.68Kd2100nMDOVITINIB
5.60Kd2500nMAST-487
5.58Kd2600nMPELITINIB
5.28Kd5200nMJNJ-7706621
5.20Kd6300nMFEDRATINIB

PubChem BioAssay actives

41 with measured affinity, of 108 total; 35 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
5-[5-(1-methylpiperidin-4-yl)-1-propan-2-ylpyrazol-3-yl]-3-(trifluoromethyl)-1H-pyrrolo[2,3-b]pyridine1177107: Inhibition of DLK (unknown origin) by RT-FRET assayki0.0002uM
5-[5-[(1R,5S)-3-(oxetan-3-yl)-3-azabicyclo[3.1.0]hexan-6-yl]-1-propan-2-ylpyrazol-3-yl]-3-(trifluoromethyl)-1H-pyrrolo[2,3-b]pyridine1177107: Inhibition of DLK (unknown origin) by RT-FRET assayki0.0004uM
2-[[6-(3,3-difluoropyrrolidin-1-yl)-4-[1-(oxetan-3-yl)piperidin-4-yl]-2-pyridinyl]amino]pyridine-4-carbonitrile1970214: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.0005uM
19-methyl-3-propan-2-yl-7-pyrimidin-2-yloxy-3,13,19,20-tetrazahexacyclo[14.7.0.02,10.04,9.011,15.017,21]tricosa-1(16),2(10),4(9),5,7,11(15),17,20-octaen-14-one1384628: Inhibition of DLK (unknown origin) using myelin basic protein as substrate preincubated for 15 mins measured after 30 mins in presence of [gamma-32P]ATP by scintillation countingic500.0010uM
1-[4-[6-amino-5-(trifluoromethyl)-3-pyridinyl]-1-(3-morpholin-4-yl-1-bicyclo[1.1.1]pentanyl)imidazol-2-yl]-2-methylpropan-1-ol1970215: Inhibition of DLK (unknown origin)ic500.0020uM
3-(difluoromethoxy)-5-[2-(3,3-difluoropyrrolidin-1-yl)-6-[(1S,4S)-2-oxa-5-azabicyclo[2.2.1]heptan-5-yl]-4-pyridinyl]pyrazin-2-amine1970215: Inhibition of DLK (unknown origin)ic500.0040uM
5-[2-(2-azabicyclo[2.1.1]hexan-2-yl)-6-[(1S,4S)-2-oxa-5-azabicyclo[2.2.1]heptan-5-yl]-4-pyridinyl]-3-(difluoromethoxy)pyrazin-2-amine1970215: Inhibition of DLK (unknown origin)ic500.0040uM
Sunitinib1384629: Inhibition of DLK (unknown origin)ki0.0063uM
3-(difluoromethoxy)-5-[2-(3,3-difluoropyrrolidin-1-yl)-6-[(1S,4S)-2-oxa-5-azabicyclo[2.2.1]heptan-5-yl]pyrimidin-4-yl]pyridin-2-amine1970215: Inhibition of DLK (unknown origin)ic500.0110uM
(1S)-1-[4-[6-amino-5-(trifluoromethyl)-3-pyridinyl]-1-(1-bicyclo[1.1.1]pentanyl)imidazol-2-yl]-2-methylpropan-1-ol1970214: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.0150uM
2-[[4-(1-acetylpiperidin-4-yl)-6-(3,3-difluoropyrrolidin-1-yl)-2-pyridinyl]amino]pyridine-4-carbonitrile2141504: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.0250uM
1-[4-[2-(3,3-difluoropyrrolidin-1-yl)-6-[[4-(trifluoromethyl)-2-pyridinyl]amino]pyrimidin-4-yl]piperidin-1-yl]ethanone1970214: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.0330uM
N-[4-[4-(4-methylpiperazin-1-yl)-6-[(5-methyl-1H-pyrazol-3-yl)amino]pyrimidin-2-yl]sulfanylphenyl]cyclopropanecarboxamide1384629: Inhibition of DLK (unknown origin)ki0.0358uM
5-chloro-2-N-[2-methoxy-4-[4-(4-methylpiperazin-1-yl)piperidin-1-yl]phenyl]-4-N-(2-propan-2-ylsulfonylphenyl)pyrimidine-2,4-diamine1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.0420uM
[4-[(E)-2-(1H-indazol-3-yl)ethenyl]phenyl]-piperazin-1-ylmethanone1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.0670uM
3-(1H-indol-5-yl)-5-[4-[(4-methylpiperazin-1-yl)methyl]phenyl]-1H-pyrrolo[2,3-b]pyridine775371: Binding affinity to human wild type DLK by qPCR analysiskd0.0700uM
3-fluoro-5-[5-[1-(oxetan-3-yl)pyrrolidin-3-yl]-1-propan-2-ylpyrazol-3-yl]-1H-pyrrolo[2,3-b]pyridine1177107: Inhibition of DLK (unknown origin) by RT-FRET assayki0.1100uM
methyl (15S,16R,18R)-10,23-bis(ethylsulfanylmethyl)-16-hydroxy-15-methyl-3-oxo-28-oxa-4,14,19-triazaoctacyclo[12.11.2.115,18.02,6.07,27.08,13.019,26.020,25]octacosa-1,6,8(13),9,11,20(25),21,23,26-nonaene-16-carboxylate1384628: Inhibition of DLK (unknown origin) using myelin basic protein as substrate preincubated for 15 mins measured after 30 mins in presence of [gamma-32P]ATP by scintillation countingic500.1140uM
3-(2-hydroxyethyl)-7-(propan-2-yloxymethyl)-3,13,23-triazahexacyclo[14.7.0.02,10.04,9.011,15.017,22]tricosa-1,4(9),5,7,10,15,17,19,21-nonaen-12-one1384628: Inhibition of DLK (unknown origin) using myelin basic protein as substrate preincubated for 15 mins measured after 30 mins in presence of [gamma-32P]ATP by scintillation countingic500.1190uM
N-(5-piperidin-4-yl-1-propan-2-ylpyrazol-3-yl)-4-(trifluoromethyl)pyridin-2-amine1970214: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.1450uM
Crizotinib1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.1700uM
1-[4-[4-[[(2R,4S)-2-(2,4-dichlorophenyl)-2-(imidazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy]phenyl]piperazin-1-yl]ethanone1970214: Binding affinity to DLK (unknown origin) assessed as inhibition constantki0.2000uM
5-[2-(2-azabicyclo[2.1.1]hexan-2-yl)-6-[(1S,4S)-2-oxa-5-azabicyclo[2.2.1]heptan-5-yl]-4-pyridinyl]pyrazin-2-amine1970215: Inhibition of DLK (unknown origin)ic500.2010uM
7-[5-[(1R,5S)-3-(oxetan-3-yl)-3-azabicyclo[3.1.0]hexan-6-yl]-1-propan-2-ylpyrazol-3-yl]-1H-pyrazolo[4,5-c]pyridin-4-amine1177107: Inhibition of DLK (unknown origin) by RT-FRET assayki0.2700uM
5-cyano-N-[2-(cyclohexen-1-yl)-4-[1-[2-(dimethylamino)acetyl]piperidin-4-yl]phenyl]-1H-imidazole-2-carboxamide1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.3300uM
Neratinib1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.3700uM
5-[(Z)-(5-fluoro-2-oxo-1H-indol-3-ylidene)methyl]-N-[(2S)-2-hydroxy-3-morpholin-4-ylpropyl]-2,4-dimethyl-1H-pyrrole-3-carboxamide1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.5600uM
Bosutinib1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.6700uM
(15S,16S,18R)-16-hydroxy-16-(hydroxymethyl)-15-methyl-28-oxa-4,14,19-triazaoctacyclo[12.11.2.115,18.02,6.07,27.08,13.019,26.020,25]octacosa-1,6,8,10,12,20,22,24,26-nonaen-3-one1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd0.8400uM
Axitinib1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd1.7000uM
4-amino-5-fluoro-3-[6-(4-methylpiperazin-1-yl)-1H-benzimidazol-2-yl]-1H-quinolin-2-one1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd2.1000uM
1-[4-[(4-ethylpiperazin-1-yl)methyl]-3-(trifluoromethyl)phenyl]-3-[4-[6-(methylamino)pyrimidin-4-yl]oxyphenyl]urea1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd2.5000uM
(E)-N-[4-(3-chloro-4-fluoroanilino)-3-cyano-7-ethoxyquinolin-6-yl]-4-(dimethylamino)but-2-enamide1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd2.6000uM
4-[[5-amino-1-(2,6-difluorobenzoyl)-1,2,4-triazol-3-yl]amino]benzenesulfonamide1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd5.2000uM
Fedratinib1970220: Binding affinity to DLK (unknown origin) assessed as dissociation constantkd6.3000uM

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Aciddecreases expression, affects expression, increases methylation, affects cotreatment8
trichostatin Adecreases expression, affects cotreatment3
Benzo(a)pyrenedecreases expression, affects methylation3
Tetrachlorodibenzodioxinaffects methylation, decreases expression3
Tretinoindecreases expression3
bisphenol Adecreases methylation, affects expression2
entinostatdecreases expression, affects cotreatment2
Decitabinedecreases methylation, increases expression, affects expression2
Vorinostataffects cotreatment, decreases expression2
Panobinostataffects cotreatment, decreases expression2
Arsenicaffects expression, affects methylation2
Fluorouracilincreases expression, affects reaction, decreases expression2
Phenylmercuric Acetateaffects cotreatment, decreases expression2
Silicon Dioxideincreases expression2
methylmercuric chlorideincreases expression1
cobaltiprotoporphyrinaffects expression1
bisphenol A diglycidyl etherdecreases expression1
manganese chloridedecreases expression, increases methylation1
benzo(e)pyreneincreases methylation1
beta-methylcholineaffects expression1
pentanalincreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
dorsomorphinaffects cotreatment, decreases expression1
Rosiglitazonedecreases expression1
Resveratroldecreases expression, affects cotreatment1
Sunitinibdecreases expression1
Arsenic Trioxideaffects response to substance1
Atrazineincreases expression1
Azacitidinedecreases methylation1
Carbamazepineaffects expression1

ChEMBL screening assays

51 unique, capped per target: 51 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL1000438BindingInhibition of human DLK expressed in baculovirus insect cell systemMixed-lineage kinase 1 and mixed-lineage kinase 3 subtype-selective dihydronaphthyl[3,4-a]pyrrolo[3,4-c]carbazole-5-ones: optimization, mixed-lineage kinase 1 crystallography, and oral in vivo activity in 1-methyl-4-phenyltetrahydropyridine models. — J Med Chem

Cellosaurus cell lines

3 cell lines: 3 embryonic stem cell

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

CellosaurusNameCategorySex
CVCL_A0X4SEES3-1V human DLK1, clone1Embryonic stem cellMale
CVCL_A0X5SEES3-1V human DLK1, clone2Embryonic stem cellMale
CVCL_A0X6SEES3-1V human DLK1, clone3Embryonic stem cellMale

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT00438217PHASE4UNKNOWNAnalysis of Genetic and Environmental Parameters Influencing Growth Rate of Precocious Puberty Children
NCT01634321PHASE4COMPLETEDThe Clinical Trial to Evaluate the Efficacy and Safety of Luphere Depot Inj. 3.75mg(Leuprolide Acetate 3.75mg) in Patients With Precocious Puberty
NCT02427958PHASE4COMPLETEDA Study to Assess the Safety and Efficacy of Leuprorelin in Central Precocious Puberty in Chinese Participants
NCT02920515PHASE4COMPLETEDStudy of Comprehensive Diagnosis and Treatment for Children Precocious Puberty
NCT02974270PHASE4UNKNOWNAnalysis of Body Mass Index in Central Precocious Puberty Patients Treated With Leuprolide Acetate
NCT03316482PHASE4COMPLETEDLeuprorelin Acetate DPS (Leuplin DPS) Treatment Quarterly in Patients With Central Precocious Puberty
NCT05341115PHASE4COMPLETEDA Study of Leuprolide Acetate Depot in Children With Central Precocious Puberty
NCT06487143PHASE4NOT_YET_RECRUITINGEfficacy, Metabolism and BMD of the 3-month TP Compared to the 1-month TP in ICPP
NCT00667446PHASE3COMPLETEDSafety Extension Study Of Leuprolide Acetate (Lupron Depot) In The Treatment Of Central Precocious Puberty
NCT00779103PHASE3COMPLETEDHistrelin Subcutaneous Implant in Children With Central Precocious Puberty
NCT01278290PHASE3COMPLETEDComparative Validation of the Triptorelin Test for the Diagnosis of CPP in Girls
NCT01467882PHASE3COMPLETEDEfficacy, Safety, and Pharmacokinetics (PK) of Triptorelin 6-month Formulation in Patients With Central Precocious Puberty
NCT02452931PHASE3COMPLETEDStudy of Leuprolide Acetate Injectable Suspension in the Treatment of Central Precocious Puberty
NCT03695237PHASE3COMPLETEDA Study to Evaluate Leuprolide Acetate 45 mg 6-Month Formulation in Children With Central Precocious Puberty (CPP)
NCT04736602PHASE3COMPLETEDEfficacy and Safety Study of Triptorelin 3-Month Formulation in Chinese Children With Central Precocious Puberty.
NCT05029622PHASE3COMPLETEDA Study to Assess the Efficacy and Safety of the Triptorelin 6-month Formulation in Paediatric Participants With Central Precocious Puberty.
NCT06025409PHASE3UNKNOWNEvaluate the Efficacy and Safety of DWJ108J
NCT06129539PHASE3ACTIVE_NOT_RECRUITINGA Study to Assess the Efficacy, Safety, and Pharmacokinetics of Debio 4326 in Pediatric Participants With Central Precocious Puberty (LIBELULA™ Clinical Trial)
NCT02006680Not specifiedTERMINATEDMarkers of Pubertal Suppression During Therapy for Precocious Puberty
NCT02993926Not specifiedCOMPLETEDA Study to Assess the Safety and Efficacy of Enantone (Leuprorelin) in Central Precocious Puberty (CPP) Among Chinese Participants
NCT05341128Not specifiedCOMPLETEDA Study of Medical Records From Children With Central Precocious Puberty (CPP) in China
NCT06720623Not specifiedCOMPLETEDDiagnostic Power of Basal LH Compared to Peak LH After Stimulus Test in the Diagnosis of Central Precocious Puberty
NCT06720844Not specifiedRECRUITINGIdiopathic Central Precocious Puberty and Associated Neurodevelopmental Syndromes and Pathologies: Evaluation of Frequency and Comparison of Diagnostic and Developmental Characteristics
NCT07359092Not specifiedCOMPLETEDSpexin and Phoenixin-20 in Girls With Central Precocious Puberty
NCT07411001Not specifiedACTIVE_NOT_RECRUITINGHypiend - Multicomponent Behavioral Intervention in Pre-puberal Children (Hypiend-PPC)