Details for: KDM5D

Gene ID: 8284

Symbol: KDM5D

Ensembl ID: ENSG00000012817

Description: lysine demethylase 5D

Associated with

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: polychromatophilic erythroblast (CL0000550)
    Fold Change: 131.6659
    Cell Significance Index: -20.4800
  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 80.2308
    Cell Significance Index: -20.3500
  • Cell Name: smooth muscle fiber of ileum (CL1000278)
    Fold Change: 42.8490
    Cell Significance Index: -20.2300
  • Cell Name: mucosal type mast cell (CL0000485)
    Fold Change: 41.9685
    Cell Significance Index: -17.0500
  • Cell Name: ileal goblet cell (CL1000326)
    Fold Change: 30.1480
    Cell Significance Index: -20.2300
  • Cell Name: ciliated cell of the bronchus (CL0002332)
    Fold Change: 17.8896
    Cell Significance Index: -17.0800
  • Cell Name: orthochromatic erythroblast (CL0000552)
    Fold Change: 16.9674
    Cell Significance Index: -20.9200
  • Cell Name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell (CL0000796)
    Fold Change: 7.6394
    Cell Significance Index: -20.4700
  • Cell Name: stromal cell of bone marrow (CL0010001)
    Fold Change: 5.4637
    Cell Significance Index: -21.5600
  • Cell Name: fast muscle cell (CL0000190)
    Fold Change: 3.7466
    Cell Significance Index: 49.0700
  • Cell Name: epidermal Langerhans cell (CL0002457)
    Fold Change: 2.7461
    Cell Significance Index: -6.0100
  • Cell Name: slow muscle cell (CL0000189)
    Fold Change: 2.1539
    Cell Significance Index: 32.2200
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 1.5539
    Cell Significance Index: 153.7200
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 1.3501
    Cell Significance Index: 256.9400
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: 1.2882
    Cell Significance Index: 81.1900
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 1.1801
    Cell Significance Index: 34.0000
  • Cell Name: BEST4+ enteroycte (CL4030026)
    Fold Change: 1.0505
    Cell Significance Index: 15.8300
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.9447
    Cell Significance Index: 102.7500
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.8953
    Cell Significance Index: 53.7500
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.8558
    Cell Significance Index: 38.7900
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.8543
    Cell Significance Index: 138.9400
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: 0.7150
    Cell Significance Index: 83.3300
  • Cell Name: epithelial cell of esophagus (CL0002252)
    Fold Change: 0.7020
    Cell Significance Index: 4.6600
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 0.6937
    Cell Significance Index: 139.1500
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: 0.6030
    Cell Significance Index: 46.2700
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: 0.5999
    Cell Significance Index: 16.0800
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: 0.4285
    Cell Significance Index: 153.7100
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: 0.4030
    Cell Significance Index: 10.3600
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.4012
    Cell Significance Index: 72.3300
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.3676
    Cell Significance Index: 25.4200
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: 0.3668
    Cell Significance Index: 72.8000
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.3327
    Cell Significance Index: 11.6900
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.3100
    Cell Significance Index: 279.9500
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: 0.2906
    Cell Significance Index: 3.9700
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: 0.2871
    Cell Significance Index: 6.2200
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: 0.2614
    Cell Significance Index: 17.5800
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: 0.2337
    Cell Significance Index: 8.8500
  • Cell Name: GABAergic amacrine cell (CL4030027)
    Fold Change: 0.2286
    Cell Significance Index: 2.8400
  • Cell Name: retinal bipolar neuron (CL0000748)
    Fold Change: 0.2071
    Cell Significance Index: 2.5100
  • Cell Name: keratocyte (CL0002363)
    Fold Change: 0.2017
    Cell Significance Index: 3.2000
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: 0.1605
    Cell Significance Index: 7.1000
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 0.1555
    Cell Significance Index: 19.1200
  • Cell Name: cortical interneuron (CL0008031)
    Fold Change: 0.1461
    Cell Significance Index: 3.5100
  • Cell Name: cerebellar granule cell (CL0001031)
    Fold Change: 0.1459
    Cell Significance Index: 2.5000
  • Cell Name: fibroblast of cardiac tissue (CL0002548)
    Fold Change: 0.1358
    Cell Significance Index: 1.9500
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: 0.1348
    Cell Significance Index: 61.1900
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: 0.1276
    Cell Significance Index: 15.0500
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 0.1160
    Cell Significance Index: 14.8700
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.0837
    Cell Significance Index: 157.6900
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.0587
    Cell Significance Index: 1.2500
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: 0.0572
    Cell Significance Index: 105.4600
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: 0.0560
    Cell Significance Index: 35.5500
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: 0.0504
    Cell Significance Index: 77.6600
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: 0.0308
    Cell Significance Index: 1.7300
  • Cell Name: type I muscle cell (CL0002211)
    Fold Change: 0.0182
    Cell Significance Index: 0.4500
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: 0.0113
    Cell Significance Index: 15.3700
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: 0.0086
    Cell Significance Index: 1.2500
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: 0.0072
    Cell Significance Index: 0.4400
  • Cell Name: umbrella cell of urothelium (CL4030056)
    Fold Change: 0.0016
    Cell Significance Index: 0.0200
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0121
    Cell Significance Index: -8.9300
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.0146
    Cell Significance Index: -0.6800
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0208
    Cell Significance Index: -15.2500
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0210
    Cell Significance Index: -6.0300
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: -0.0243
    Cell Significance Index: -0.3500
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0245
    Cell Significance Index: -13.8100
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0253
    Cell Significance Index: -19.1800
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0334
    Cell Significance Index: -5.7000
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: -0.0647
    Cell Significance Index: -1.7300
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: -0.0657
    Cell Significance Index: -3.4200
  • Cell Name: transit amplifying cell of small intestine (CL0009012)
    Fold Change: -0.0776
    Cell Significance Index: -1.6100
  • Cell Name: hippocampal pyramidal neuron (CL1001571)
    Fold Change: -0.0792
    Cell Significance Index: -2.2600
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: -0.0795
    Cell Significance Index: -4.1800
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: -0.0905
    Cell Significance Index: -4.7000
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0908
    Cell Significance Index: -9.2800
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0926
    Cell Significance Index: -19.5000
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: -0.0960
    Cell Significance Index: -2.4000
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: -0.1080
    Cell Significance Index: -2.9400
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.1256
    Cell Significance Index: -14.3900
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: -0.1311
    Cell Significance Index: -2.8700
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.1328
    Cell Significance Index: -13.8300
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: -0.1711
    Cell Significance Index: -11.0400
  • Cell Name: cone retinal bipolar cell (CL0000752)
    Fold Change: -0.1732
    Cell Significance Index: -1.3400
  • Cell Name: retinal rod cell (CL0000604)
    Fold Change: -0.1988
    Cell Significance Index: -2.3700
  • Cell Name: preadipocyte (CL0002334)
    Fold Change: -0.2101
    Cell Significance Index: -4.1000
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.2375
    Cell Significance Index: -18.8100
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.2438
    Cell Significance Index: -14.9500
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: -0.2752
    Cell Significance Index: -7.6900
  • Cell Name: skeletal muscle fibroblast (CL0011027)
    Fold Change: -0.2967
    Cell Significance Index: -2.0100
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: -0.3077
    Cell Significance Index: -9.8000
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.3220
    Cell Significance Index: -6.8400
  • Cell Name: sst GABAergic cortical interneuron (CL4023017)
    Fold Change: -0.3358
    Cell Significance Index: -6.6400
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: -0.3369
    Cell Significance Index: -10.7900
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: -0.3564
    Cell Significance Index: -11.6700
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.3596
    Cell Significance Index: -12.5000
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: -0.3800
    Cell Significance Index: -6.3600
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.3808
    Cell Significance Index: -9.5100
  • Cell Name: cardiac muscle cell (CL0000746)
    Fold Change: -0.3827
    Cell Significance Index: -5.6500
  • Cell Name: VIP GABAergic cortical interneuron (CL4023016)
    Fold Change: -0.3885
    Cell Significance Index: -7.8000
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.3979
    Cell Significance Index: -13.9400
  • Cell Name: corneal endothelial cell (CL0000132)
    Fold Change: -0.4240
    Cell Significance Index: -6.4500

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:** KDM5D is a member of the Jumonji/AT-H2A histone demethylase family, characterized by its ability to remove methyl groups from histone lysine residues. Specifically, KDM5D is known to target the H3K4me3 mark, which is a key epigenetic modification involved in the regulation of gene expression. The enzyme is highly specific, with a high affinity for the H3K4me3 mark, allowing it to precisely regulate chromatin structure and gene expression. **Pathways and Functions:** KDM5D is involved in various cellular processes, including: 1. **Chromatin remodeling:** KDM5D's ability to remove H3K4me3 marks leads to chromatin remodeling, allowing for the regulation of gene expression and the control of cellular differentiation. 2. **Androgen signaling:** KDM5D plays a crucial role in the regulation of androgen signaling pathways, which are essential for the development and maintenance of male reproductive tissues. 3. **Transcriptional regulation:** KDM5D's activity is required for the regulation of transcriptional programs, including those involved in immune responses and cell differentiation. 4. **Cellular differentiation:** KDM5D's involvement in chromatin remodeling and transcriptional regulation makes it essential for cellular differentiation, including the development of neurons and oligodendrocytes. **Clinical Significance:** Dysregulation of KDM5D has been implicated in various diseases, including: 1. **Androgen insensitivity syndrome (AIS):** Mutations in the KDM5D gene have been associated with AIS, a condition characterized by impaired androgen signaling and male infertility. 2. **Cancer:** KDM5D's role in chromatin remodeling and transcriptional regulation makes it a potential target for cancer therapy. 3. **Neurodegenerative diseases:** Dysregulation of KDM5D has been implicated in neurodegenerative diseases, including Alzheimer's and Parkinson's disease. 4. **Immune disorders:** KDM5D's involvement in immune responses makes it a potential target for the treatment of immune disorders, including autoimmune diseases. In conclusion, KDM5D is a critical regulator of chromatin structure and gene expression, playing a pivotal role in various cellular processes, including androgen signaling, transcriptional regulation, and immune responses. Its dysregulation has been implicated in various diseases, highlighting the importance of further research into the functions and clinical significance of this enzyme.

Genular Protein ID: 1298443168

Symbol: KDM5D_HUMAN

Name: Lysine-specific demethylase 5D

UniProtKB Accession Codes:

Database IDs:

Citations:

PubMed ID: 8841177

Title: Gene sequence and evolutionary conservation of human SMCY.

PubMed ID: 8841177

DOI: 10.1038/ng1096-128

PubMed ID: 9039502

Title: Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain.

PubMed ID: 9039502

DOI: 10.1093/dnares/3.5.321

PubMed ID: 10861003

Title: Population genetic implications from sequence variation in four Y chromosome genes.

PubMed ID: 10861003

DOI: 10.1073/pnas.97.13.7354

PubMed ID: 12815422

Title: The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes.

PubMed ID: 12815422

DOI: 10.1038/nature01722

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: 9060413

Title: Analysis of mutation rates in the SMCY/SMCX genes shows that mammalian evolution is male driven.

PubMed ID: 9060413

DOI: 10.1007/s003359900372

PubMed ID: 17320162

Title: Physical and functional association of a trimethyl H3K4 demethylase and Ring6a/MBLR, a polycomb-like protein.

PubMed ID: 17320162

DOI: 10.1016/j.cell.2007.02.004

PubMed ID: 17320160

Title: The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases.

PubMed ID: 17320160

DOI: 10.1016/j.cell.2007.02.017

PubMed ID: 17351630

Title: The trithorax-group gene in Drosophila little imaginal discs encodes a trimethylated histone H3 Lys4 demethylase.

PubMed ID: 17351630

DOI: 10.1038/nsmb1217

PubMed ID: 18459961

Title: Spermatogenesis-specific association of SMCY and MSH5.

PubMed ID: 18459961

DOI: 10.1111/j.1365-2443.2008.01193.x

PubMed ID: 26747897

Title: JARID1D is a suppressor and prognostic marker of prostate cancer invasion and metastasis.

PubMed ID: 26747897

DOI: 10.1158/0008-5472.can-15-0906

PubMed ID: 27427228

Title: Structural Basis for KDM5A Histone Lysine Demethylase Inhibition by Diverse Compounds.

PubMed ID: 27427228

DOI: 10.1016/j.chembiol.2016.06.006

PubMed ID: 27477906

Title: ZMYND8 reads the dual histone mark H3K4me1-H3K14ac to antagonize the expression of metastasis-linked genes.

PubMed ID: 27477906

DOI: 10.1016/j.molcel.2016.06.035

PubMed ID: 27185910

Title: Resistance to docetaxel in prostate cancer is associated with androgen receptor activation and loss of KDM5D expression.

PubMed ID: 27185910

DOI: 10.1073/pnas.1600420113

Sequence Information:

  • Length: 1539
  • Mass: 174073
  • Checksum: E58DAE374E3BD7AA
  • Sequence:
  • MEPGCDEFLP PPECPVFEPS WAEFQDPLGY IAKIRPIAEK SGICKIRPPA DWQPPFAVEV 
    DNFRFTPRVQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL KIPNVERKIL DLYSLSKIVI 
    EEGGYEAICK DRRWARVAQR LHYPPGKNIG SLLRSHYERI IYPYEMFQSG ANHVQCNTHP 
    FDNEVKDKEY KPHSIPLRQS VQPSKFSSYS RRAKRLQPDP EPTEEDIEKH PELKKLQIYG 
    PGPKMMGLGL MAKDKDKTVH KKVTCPPTVT VKDEQSGGGN VSSTLLKQHL SLEPCTKTTM 
    QLRKNHSSAQ FIDSYICQVC SRGDEDDKLL FCDGCDDNYH IFCLLPPLPE IPRGIWRCPK 
    CILAECKQPP EAFGFEQATQ EYSLQSFGEM ADSFKSDYFN MPVHMVPTEL VEKEFWRLVS 
    SIEEDVTVEY GADIHSKEFG SGFPVSNSKQ NLSPEEKEYA TSGWNLNVMP VLDQSVLCHI 
    NADISGMKVP WLYVGMVFSA FCWHIEDHWS YSINYLHWGE PKTWYGVPSL AAEHLEEVMK 
    MLTPELFDSQ PDLLHQLVTL MNPNTLMSHG VPVVRTNQCA GEFVITFPRA YHSGFNQGYN 
    FAEAVNFCTA DWLPAGRQCI EHYRRLRRYC VFSHEELICK MAAFPETLDL NLAVAVHKEM 
    FIMVQEERRL RKALLEKGVT EAEREAFELL PDDERQCIKC KTTCFLSALA CYDCPDGLVC 
    LSHINDLCKC SSSRQYLRYR YTLDELPTML HKLKIRAESF DTWANKVRVA LEVEDGRKRS 
    FEELRALESE ARERRFPNSE LLQRLKNCLS EVEACIAQVL GLVSGQVARM DTPQLTLTEL 
    RVLLEQMGSL PCAMHQIGDV KDVLEQVEAY QAEAREALAT LPSSPGLLRS LLERGQQLGV 
    EVPEAHQLQQ QVEQAQWLDE VKQALAPSAH RGSLVIMQGL LVMGAKIASS PSVDKARAEL 
    QELLTIAERW EEKAHFCLEA RQKHPPATLE AIIRETENIP VHLPNIQALK EALTKAQAWI 
    ADVDEIQNGD HYPCLDDLEG LVAVGRDLPV GLEELRQLEL QVLTAHSWRE KASKTFLKKN 
    SCYTLLEVLC PCADAGSDST KRSRWMEKAL GLYQCDTELL GLSAQDLRDP GSVIVAFKEG 
    EQKEKEGILQ LRRTNSAKPS PLAPSLMASS PTSICVCGQV PAGVGVLQCD LCQDWFHGQC 
    VSVPHLLTSP KPSLTSSPLL AWWEWDTKFL CPLCMRSRRP RLETILALLV ALQRLPVRLP 
    EGEALQCLTE RAIGWQDRAR KALASEDVTA LLRQLAELRQ QLQAKPRPEE ASVYTSATAC 
    DPIREGSGNN ISKVQGLLEN GDSVTSPENM APGKGSDLEL LSSLLPQLTG PVLELPEAIR 
    APLEELMMEG DLLEVTLDEN HSIWQLLQAG QPPDLDRIRT LLELEKFEHQ GSRTRSRALE 
    RRRRRQKVDQ GRNVENLVQQ ELQSKRARSS GIMSQVGREE EHYQEKADRE NMFLTPSTDH 
    SPFLKGNQNS LQHKDSGSSA ACPSLMPLLQ LSYSDEQQL

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.