Gene Details | GeDiPNet - Complete Gene Info, Disease Associations & Pathways

Gene Gene information from NCBI Gene database. Gene miRNA Gene ontology Other IDs Protein Associated diseases
Entrez ID	56956
Gene name	LIM homeobox 9
Gene symbol	LHX9
Synonyms (NCBI Gene)	-
Chromosome	1
Chromosome location	1q31.3
Summary	This gene encodes a member of the LIM homeobox gene family of developmentally expressed transcription factors. The encoded protein contains a homeodomain and two cysteine-rich zinc-binding LIM domains involved in protein-protein interactions. The protein

168

Show/Hide all (168)

miRTarBase ID	miRNA	Experiments	Reference
MIRT016753	hsa-miR-335-5p	Microarray	18185580
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT630434	hsa-miR-7110-3p	HITS-CLIP	23824327
MIRT630433	hsa-miR-6817-3p	HITS-CLIP	23824327
MIRT630432	hsa-miR-130b-5p	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT630431	hsa-miR-6873-3p	HITS-CLIP	23824327
MIRT630430	hsa-miR-4753-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT623388	hsa-miR-3184-3p	HITS-CLIP	23824327
MIRT623387	hsa-miR-1264	HITS-CLIP	23824327
MIRT623386	hsa-miR-6895-3p	HITS-CLIP	23824327
MIRT623385	hsa-miR-129-5p	HITS-CLIP	23824327
MIRT1109062	hsa-miR-3163	CLIP-seq
MIRT1109063	hsa-miR-643	CLIP-seq
MIRT1109064	hsa-miR-1252	CLIP-seq
MIRT1109065	hsa-miR-224	CLIP-seq
MIRT1109066	hsa-miR-23a	CLIP-seq
MIRT1109067	hsa-miR-23b	CLIP-seq
MIRT1109068	hsa-miR-23c	CLIP-seq
MIRT1109069	hsa-miR-486-5p	CLIP-seq
MIRT1109070	hsa-miR-561	CLIP-seq

Show/Hide all (21)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000785	Component	Chromatin	ISA
GO:0000977	Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA
GO:0000981	Function	DNA-binding transcription factor activity, RNA polymerase II-specific	IBA
GO:0000981	Function	DNA-binding transcription factor activity, RNA polymerase II-specific	IEA
GO:0000981	Function	DNA-binding transcription factor activity, RNA polymerase II-specific	ISA
GO:0003677	Function	DNA binding	IEA
GO:0005515	Function	Protein binding	IPI	25416956, 25910212, 32296183
GO:0005634	Component	Nucleus	IBA
GO:0005634	Component	Nucleus	IEA
GO:0006355	Process	Regulation of DNA-templated transcription	IEA
GO:0006357	Process	Regulation of transcription by RNA polymerase II	IBA
GO:0008283	Process	Cell population proliferation	IEA
GO:0008584	Process	Male gonad development	IEA
GO:0008585	Process	Female gonad development	IEA
GO:0030182	Process	Neuron differentiation	IBA
GO:0035262	Process	Gonad morphogenesis	IEA
GO:0043565	Function	Sequence-specific DNA binding	IEA
GO:0045892	Process	Negative regulation of DNA-templated transcription	ISS
GO:0046872	Function	Metal ion binding	IEA
GO:0097380	Process	Dorsal spinal cord interneuron anterior axon guidance	ISS
GO:1990837	Function	Sequence-specific double-stranded DNA binding	IDA	28473536

MIM	HGNC	e!Ensembl
606066	14222	ENSG00000143355

Q9NQ69

Protein name

LIM/homeobox protein Lhx9 (LIM homeobox protein 9)

Protein function

Involved in gonadal development.

PDB

2DMQ

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF00412	LIM	71 → 128	LIM domain	Domain
PF00412	LIM	133 → 190	LIM domain	Domain
PF00046	Homeodomain	268 → 324	Homeodomain	Domain

Sequence

MEIVGCRAEDNSCPFRPPAMLFHGISGGHIQGIMEEMERRSKTEARLAKGAQLNGRDAGM
PPLSPEKPALCAGCGGKISDRYYLLAVDKQWHLRCLKCCECKLALESELTCFAKDGSIYC
KEDYYRRFSVQRCARCHLGISASEMVMRARDSVYHLSCFTCSTCNKTLTTGDHFGMKDSL
VYCRAHFETLLQGEYPPQLSYTELAAKSGGLALPYFNGTGTVQKGRPRKRKSPALGVDIV
NYNSGCNENEADHLDRDQQPYPPSQKTKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQL
AQKTGLTKRVLQVWFQNARAKFRRNLLRQENGGVDKADGTSLPAPPSADSGALTPPGTAT
TLTDLTNPTITVVTSVTSNMDSHESGSPSQTTLTNLF

Sequence length

397

Interactions

View interactions

Evidence Score: ★☆☆☆☆ Gene-disease association found in Text Mining only ★★☆☆☆ Found in Text Mining and Unknown/Other Associations ★★★☆☆ Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆ ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★ ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)

Show/Hide Unknown Diseases (7)

Phenotype Name	Clinical Significance	Source	Evidence Score
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
ALZHEIMER DISEASE	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CENTRAL NERVOUS SYSTEM CANCER	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
DEMENTIA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
GLIOBLASTOMA MULTIFORME	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
GLIOMA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
INSOMNIA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Pituitary stalk interruption syndrome	Uncertain significance	ClinVar Disgenet	★★★★★ ★★★☆☆ Reported in Unknown/Other Associations (≥2 sources)

Show/Hide Text Mining Associations (14)

Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Associations from Text Mining Disease associations identified through text mining
Alzheimer Disease	Alzheimer disease	Pubtator	33797837	Associate	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Astrocytoma	Astrocytoma	BEFREE	19568415		★★★★★ ★☆☆☆☆ Found in Text Mining only
Carcinoma Hepatocellular	Hepatocellular carcinoma	Pubtator	26099202	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Glioma	Glioma	BEFREE	19568415		★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Glioma	Glioma	Pubtator	19568415	Inhibit	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Gonadal Dysgenesis	Gonadal Dysgenesis	BEFREE	11397841		★★★★★ ★☆☆☆☆ Found in Text Mining only
Heart Diseases	Heart disease	Pubtator	30212560	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Lung Neoplasms	Lung neoplasms	Pubtator	34620221	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Malignant Glioma	Glioma	BEFREE	19568415		★★★★★ ★☆☆☆☆ Found in Text Mining only
Ovarian Neoplasms	Ovarian neoplasm	Pubtator	34609082	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Pilocytic Astrocytoma	Astrocytoma	BEFREE	19568415		★★★★★ ★☆☆☆☆ Found in Text Mining only
Tetralogy of Fallot	Tetralogy of fallot	Pubtator	30212560	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Turner Syndrome	Turner Syndrome	BEFREE	11397841		★★★★★ ★☆☆☆☆ Found in Text Mining only
Uterine Cervical Neoplasms	Uterine neoplasm	Pubtator	28351298	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only

LHX9 (LIM homeobox 9)