Details for: HOXD4

Gene ID: 3233

Symbol: HOXD4

Ensembl ID: ENSG00000170166

Description: homeobox D4

Associated with

  • Activation of anterior hox genes in hindbrain development during early embryogenesis
    (R-HSA-5617472)
  • Activation of hox genes during differentiation
    (R-HSA-5619507)
  • Developmental biology
    (R-HSA-1266738)
  • Anterior/posterior pattern specification
    (GO:0009952)
  • Cell junction
    (GO:0030054)
  • Chromatin
    (GO:0000785)
  • Dna-binding transcription activator activity, rna polymerase ii-specific
    (GO:0001228)
  • Dna-binding transcription factor activity, rna polymerase ii-specific
    (GO:0000981)
  • Embryonic organ development
    (GO:0048568)
  • Embryonic skeletal system morphogenesis
    (GO:0048704)
  • Nucleoplasm
    (GO:0005654)
  • Positive regulation of transcription by rna polymerase ii
    (GO:0045944)
  • Protein binding
    (GO:0005515)
  • Rna polymerase ii cis-regulatory region sequence-specific dna binding
    (GO:0000978)
  • Rna polymerase ii transcription regulatory region sequence-specific dna binding
    (GO:0000977)
  • Sequence-specific double-stranded dna binding
    (GO:1990837)
  • Stem cell differentiation
    (GO:0048863)

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: embryonic stem cell (CL0002322)
    Fold Change: 10.3168
    Cell Significance Index: -4.2500
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: 1.8094
    Cell Significance Index: 110.9400
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: 1.4517
    Cell Significance Index: 31.4500
  • Cell Name: CD14-low, CD16-positive monocyte (CL0002396)
    Fold Change: 1.3966
    Cell Significance Index: 33.8300
  • Cell Name: sensory neuron (CL0000101)
    Fold Change: 0.9342
    Cell Significance Index: 5.3100
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.5232
    Cell Significance Index: 99.5600
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: 0.5174
    Cell Significance Index: 13.8700
  • Cell Name: peg cell (CL4033014)
    Fold Change: 0.4138
    Cell Significance Index: 9.5600
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.3641
    Cell Significance Index: 36.0200
  • Cell Name: kidney cell (CL1000497)
    Fold Change: 0.3582
    Cell Significance Index: 2.8600
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.3259
    Cell Significance Index: 6.9400
  • Cell Name: taste receptor cell (CL0000209)
    Fold Change: 0.3200
    Cell Significance Index: 3.7200
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: 0.3137
    Cell Significance Index: 10.9000
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: 0.2965
    Cell Significance Index: 15.4000
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.2944
    Cell Significance Index: 265.7900
  • Cell Name: surface ectodermal cell (CL0000114)
    Fold Change: 0.2496
    Cell Significance Index: 1.9700
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.2018
    Cell Significance Index: 32.8200
  • Cell Name: retinal blood vessel endothelial cell (CL0002585)
    Fold Change: 0.1896
    Cell Significance Index: 2.4500
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.1887
    Cell Significance Index: 20.5300
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.1354
    Cell Significance Index: 8.1300
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.1014
    Cell Significance Index: 7.0200
  • Cell Name: endothelial cell of venule (CL1000414)
    Fold Change: 0.1011
    Cell Significance Index: 1.1500
  • Cell Name: decidual cell (CL2000002)
    Fold Change: 0.0810
    Cell Significance Index: 1.3000
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.0499
    Cell Significance Index: 2.2600
  • Cell Name: hematopoietic stem cell (CL0000037)
    Fold Change: 0.0386
    Cell Significance Index: 0.6600
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: 0.0258
    Cell Significance Index: 3.5400
  • Cell Name: myometrial cell (CL0002366)
    Fold Change: 0.0165
    Cell Significance Index: 0.1900
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 0.0097
    Cell Significance Index: 0.2800
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.0078
    Cell Significance Index: 1.4100
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.0037
    Cell Significance Index: 0.1300
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: 0.0004
    Cell Significance Index: 0.0100
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0010
    Cell Significance Index: -0.7000
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0026
    Cell Significance Index: -1.9400
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0070
    Cell Significance Index: -0.7200
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: -0.0080
    Cell Significance Index: -4.3800
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: -0.0084
    Cell Significance Index: -0.1200
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.0109
    Cell Significance Index: -0.5500
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: -0.0119
    Cell Significance Index: -0.2500
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: -0.0134
    Cell Significance Index: -1.6500
  • Cell Name: transit amplifying cell of small intestine (CL0009012)
    Fold Change: -0.0192
    Cell Significance Index: -0.4000
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.0202
    Cell Significance Index: -4.0500
  • Cell Name: fallopian tube secretory epithelial cell (CL4030006)
    Fold Change: -0.0239
    Cell Significance Index: -0.3700
  • Cell Name: BEST4+ enteroycte (CL4030026)
    Fold Change: -0.0259
    Cell Significance Index: -0.3900
  • Cell Name: lactocyte (CL0002325)
    Fold Change: -0.0361
    Cell Significance Index: -4.6700
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: -0.0378
    Cell Significance Index: -1.2100
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0389
    Cell Significance Index: -4.4600
  • Cell Name: paneth cell of colon (CL0009009)
    Fold Change: -0.0467
    Cell Significance Index: -0.7000
  • Cell Name: epithelial cell of nephron (CL1000449)
    Fold Change: -0.0482
    Cell Significance Index: -0.4100
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: -0.0540
    Cell Significance Index: -1.4700
  • Cell Name: ciliated epithelial cell (CL0000067)
    Fold Change: -0.0548
    Cell Significance Index: -0.5400
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.0571
    Cell Significance Index: -4.5200
  • Cell Name: caudal ganglionic eminence derived cortical interneuron (CL4023064)
    Fold Change: -0.0592
    Cell Significance Index: -1.1800
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: -0.0660
    Cell Significance Index: -4.9200
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.0684
    Cell Significance Index: -2.0200
  • Cell Name: secretory cell (CL0000151)
    Fold Change: -0.0836
    Cell Significance Index: -0.5800
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.0875
    Cell Significance Index: -2.3000
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.0886
    Cell Significance Index: -2.5400
  • Cell Name: prostate gland microvascular endothelial cell (CL2000059)
    Fold Change: -0.0891
    Cell Significance Index: -0.6400
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.0911
    Cell Significance Index: -4.2800
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.1002
    Cell Significance Index: -4.6700
  • Cell Name: CD14-positive monocyte (CL0001054)
    Fold Change: -0.1064
    Cell Significance Index: -2.0800
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -0.1150
    Cell Significance Index: -4.2200
  • Cell Name: pancreatic stellate cell (CL0002410)
    Fold Change: -0.1191
    Cell Significance Index: -1.5000
  • Cell Name: precursor B cell (CL0000817)
    Fold Change: -0.1260
    Cell Significance Index: -1.6300
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.1295
    Cell Significance Index: -3.3000
  • Cell Name: neural crest cell (CL0011012)
    Fold Change: -0.1336
    Cell Significance Index: -1.4500
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.1386
    Cell Significance Index: -3.7000
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: -0.1460
    Cell Significance Index: -2.1000
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: -0.1477
    Cell Significance Index: -3.9500
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: -0.1479
    Cell Significance Index: -2.4800
  • Cell Name: preadipocyte (CL0002334)
    Fold Change: -0.1517
    Cell Significance Index: -2.9600
  • Cell Name: interstitial cell of ovary (CL0002094)
    Fold Change: -0.1546
    Cell Significance Index: -1.9800
  • Cell Name: mesenchymal stem cell (CL0000134)
    Fold Change: -0.1581
    Cell Significance Index: -1.5300
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.1602
    Cell Significance Index: -4.0000
  • Cell Name: skeletal muscle myoblast (CL0000515)
    Fold Change: -0.1647
    Cell Significance Index: -1.7900
  • Cell Name: vascular lymphangioblast (CL0005022)
    Fold Change: -0.1686
    Cell Significance Index: -2.9800
  • Cell Name: CD4-positive, alpha-beta thymocyte (CL0000810)
    Fold Change: -0.1717
    Cell Significance Index: -2.9600
  • Cell Name: kidney loop of Henle thick ascending limb epithelial cell (CL1001106)
    Fold Change: -0.1787
    Cell Significance Index: -1.6100
  • Cell Name: helper T cell (CL0000912)
    Fold Change: -0.1789
    Cell Significance Index: -2.5400
  • Cell Name: hepatocyte (CL0000182)
    Fold Change: -0.1831
    Cell Significance Index: -2.5400
  • Cell Name: microglial cell (CL0000129)
    Fold Change: -0.1846
    Cell Significance Index: -2.1700
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.1908
    Cell Significance Index: -4.0500
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: -0.1909
    Cell Significance Index: -4.1800
  • Cell Name: megakaryocyte-erythroid progenitor cell (CL0000050)
    Fold Change: -0.1918
    Cell Significance Index: -2.6300
  • Cell Name: early T lineage precursor (CL0002425)
    Fold Change: -0.1991
    Cell Significance Index: -2.8900
  • Cell Name: periportal region hepatocyte (CL0019026)
    Fold Change: -0.2019
    Cell Significance Index: -2.9800
  • Cell Name: lamp5 GABAergic cortical interneuron (CL4023011)
    Fold Change: -0.2032
    Cell Significance Index: -4.3900
  • Cell Name: intestinal epithelial cell (CL0002563)
    Fold Change: -0.2043
    Cell Significance Index: -2.1200
  • Cell Name: sst GABAergic cortical interneuron (CL4023017)
    Fold Change: -0.2109
    Cell Significance Index: -4.1700
  • Cell Name: Sertoli cell (CL0000216)
    Fold Change: -0.2153
    Cell Significance Index: -3.0200
  • Cell Name: cytotoxic T cell (CL0000910)
    Fold Change: -0.2154
    Cell Significance Index: -3.1400
  • Cell Name: mucosal invariant T cell (CL0000940)
    Fold Change: -0.2156
    Cell Significance Index: -2.4800
  • Cell Name: kidney collecting duct principal cell (CL1001431)
    Fold Change: -0.2205
    Cell Significance Index: -2.0100
  • Cell Name: VIP GABAergic cortical interneuron (CL4023016)
    Fold Change: -0.2229
    Cell Significance Index: -4.4800
  • Cell Name: neuroplacodal cell (CL0000032)
    Fold Change: -0.2315
    Cell Significance Index: -2.8500
  • Cell Name: eukaryotic cell (CL0000255)
    Fold Change: -0.2385
    Cell Significance Index: -10.3700
  • Cell Name: granulocyte (CL0000094)
    Fold Change: -0.2412
    Cell Significance Index: -2.9100
  • Cell Name: megakaryocyte (CL0000556)
    Fold Change: -0.2417
    Cell Significance Index: -3.9200
  • Cell Name: fraction A pre-pro B cell (CL0002045)
    Fold Change: -0.2475
    Cell Significance Index: -2.9300
  • Cell Name: neural progenitor cell (CL0011020)
    Fold Change: -0.2486
    Cell Significance Index: -2.4600

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** HOXD4 is a transcription factor that belongs to the Homeobox (Hox) gene family, which consists of a group of genes that encode transcription factors that specify body patterning in animals. HOXD4 is a highly conserved gene that has been identified in various species, including humans, mice, and birds. It is characterized by its ability to bind to specific DNA sequences, known as homeobox elements, which are critical for its transcriptional activity. HOXD4 is also known for its ability to interact with other transcription factors and co-regulators, modulating its transcriptional activity. **Pathways and Functions:** The HOXD4 gene is involved in several key developmental pathways, including: 1. **Anterior-Posterior Pattern Specification:** HOXD4 plays a crucial role in the specification of anterior-posterior patterns in the hindbrain during early embryogenesis. This process involves the coordinated expression of Hox genes, including HOXD4, to establish the correct body plan. 2. **Cell Junction and Chromatin Remodeling:** HOXD4 has been shown to interact with other transcription factors and co-regulators to regulate the expression of genes involved in cell junction and chromatin remodeling. This process is critical for the development of embryonic tissues. 3. **Stem Cell Differentiation:** HOXD4 has been implicated in the regulation of stem cell differentiation, particularly in the development of immune cells. **Clinical Significance:** Dysregulation of HOXD4 has been implicated in several diseases, including: 1. **Cancer:** HOXD4 has been shown to be overexpressed in several types of cancer, including leukemia and lymphoma. This overexpression is thought to contribute to tumorigenesis and tumour progression. 2. **Autoimmune Disorders:** HOXD4 has been implicated in the development of autoimmune disorders, including multiple sclerosis and rheumatoid arthritis. This is thought to be due to its role in regulating the expression of genes involved in immune cell differentiation and function. 3. **Neurological Disorders:** HOXD4 has been implicated in the development of neurological disorders, including autism and schizophrenia. This is thought to be due to its role in regulating the expression of genes involved in brain development and function. In conclusion, HOXD4 is a crucial gene that plays a vital role in developmental biology, particularly in the specification of anterior-posterior patterns in the hindbrain and the development of the embryonic skeletal system. Its dysregulation has been implicated in several diseases, including cancer, autoimmune disorders, and neurological disorders. Further research is needed to fully understand the mechanisms by which HOXD4 regulates gene expression and its clinical significance in human disease. **Significantly Expressed Cells:** The HOXD4 gene is widely expressed in various cell types, including: * Microglial cells * T cells * Plasma cells * Conventional dendritic cells * Granulocyte monocyte progenitor cells * Goblet cells * Enterocytes of the epithelium of the small intestine * Erythrocytes * Monocytes * B cells **Proteins:** The HOXD4 gene encodes a protein called Homeobox protein Hox-D4, which is a transcription factor that regulates gene expression through its ability to bind to specific DNA sequences. In summary, HOXD4 is a critical gene that plays a pivotal role in developmental biology, particularly in the specification of anterior-posterior patterns in the hindbrain and the development of the embryonic skeletal system. Its dysregulation has been implicated in several diseases, including cancer, autoimmune disorders, and neurological disorders. Further research is needed to fully understand the mechanisms by which HOXD4 regulates gene expression and its clinical significance in human disease.

Genular Protein ID: 1201085333

Symbol: HXD4_HUMAN

Name: Homeobox protein Hox-D4

UniProtKB Accession Codes:

P09016 B2R9R3 Q96AU0

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CTD 1 DMDM 1 DNASU 1 DisGeNET 1 ELM 1 EMBL 5 Ensembl 1 GO 13 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 7 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PIR 1 PRINTS 2 PRO 1 PROSITE 3 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 Pumba 1 RNAct 1 Reactome 1 RefSeq 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 1975093

Title: Molecular mechanisms underlying the expression of the human HOX-5.1 gene.

PubMed ID: 1975093

DOI: 10.1093/nar/18.15.4361

PubMed ID: 2879245

Title: Differential and stage-related expression in embryonic tissues of a new human homoeobox gene.

PubMed ID: 2879245

DOI: 10.1038/324664a0

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 2576652

Title: Organization of human class I homeobox genes.

PubMed ID: 2576652

DOI: 10.1139/g89-133

PubMed ID: 7791786

Title: Both Pbx1 and E2A-Pbx1 bind the DNA motif ATCAATCAA cooperatively with the products of multiple murine Hox genes, some of which are themselves oncogenes.

PubMed ID: 7791786

DOI: 10.1128/mcb.15.7.3786

Sequence Information:

  • Length: 255
  • Mass: 27885
  • Checksum: 39205343CDB0142F
  • Sequence:
    • MVMSSYMVNS KYVDPKFPPC EEYLQGGYLG EQGADYYGGG AQGADFQPPG LYPRPDFGEQ 
PFGGSGPGPG SALPARGHGQ EPGGPGGHYA APGEPCPAPP APPPAPLPGA RAYSQSDPKQ 
PPSGTALKQP AVVYPWMKKV HVNSVNPNYT GGEPKRSRTA YTRQQVLELE KEFHFNRYLT 
RRRRIEIAHT LCLSERQIKI WFQNRRMKWK KDHKLPNTKG RSSSSSSSSS CSSSVAPSQH 
LQPMAKDHHT DLTTL

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.