JMJD6 [The Human Chemical-Genetic Interaction Map Project]

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======= JMJD6 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: JMJD6
  * **<color #00a2e8>Official Name</color>**: jumonji domain containing 6, arginine demethylase and lysine hydroxylase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=23210|23210]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q6NYC1|Q6NYC1]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=JMJD6&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20JMJD6|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/604914|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Dioxygenase that can both act as a histone arginine demethylase and a lysyl-hydroxylase. Acts as a lysyl-hydroxylase that catalyzes 5-hydroxylation on specific lysine residues of target proteins such as U2AF2/U2AF65 and LUC7L2. Acts as a regulator of RNA splicing by mediating 5-hydroxylation of U2AF2/U2AF65, affecting the pre-mRNA splicing activity of U2AF2/U2AF65. In addition to peptidyl-lysine 5-dioxygenase activity, may act as an RNA hydroxylase, as suggested by its ability to bind single strand RNA. Also acts as an arginine demethylase which demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me), thereby playing a role in histone code. However, histone arginine demethylation may not constitute the primary activity in vivo. Has no histone lysine demethylase activity. Required for differentiation of multiple organs during embryogenesis. Acts as a key regulator of hematopoietic differentiation: required for angiogenic sprouting by regulating the pre-mRNA splicing activity of U2AF2/U2AF65. Seems to be necessary for the regulation of macrophage cytokine responses. {ECO:0000269|PubMed:17947579, ECO:0000269|PubMed:19574390, ECO:0000269|PubMed:20684070, ECO:0000269|PubMed:21060799}.

<button type='primary' size='sm' modal='Pfam_Domains'>Pfam Domains</button>
<button type='primary' size='sm' modal='GO_terms'>GO Terms</button>


<modal id='Pfam_Domains' size='lg' title='Pfam Domains'>
|JmjC|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|histone H3-R2 demethylation|
|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|
|histone demethylase activity (H3-R2 specific)|
|peptidyl-lysine 5-dioxygenase activity|
|histone H4-R3 demethylation|
|histone arginine demethylation|
|histone demethylase activity (H4-R3 specific)|
|oxidative RNA demethylase activity|
|P-TEFb complex binding|
|oxidative RNA demethylation|
|demethylase activity|
|recognition of apoptotic cell|
|peptidyl-lysine hydroxylation|
|histone demethylase activity|
|oxidative demethylation|
|protein hydroxylation|
|histone demethylation|
|protein dealkylation|
|protein demethylation|
|erythrocyte development|
|apoptotic cell clearance|
|T cell differentiation in thymus|
|single-stranded RNA binding|
|macrophage activation|
|sprouting angiogenesis|
|myeloid cell development|
|demethylation|
|erythrocyte differentiation|
|erythrocyte homeostasis|
|regulation of mRNA splicing, via spliceosome|
|myeloid cell homeostasis|
|phagocytosis, recognition|
|iron ion binding|
|T cell differentiation|
|regulation of RNA splicing|
|regulation of mRNA processing|
|retina development in camera-type eye|
|ribonucleoprotein complex|
|RNA modification|
|lung development|
|respiratory tube development|
|respiratory system development|
|homeostasis of number of cells|
|signaling receptor activity|
|myeloid cell differentiation|
|T cell activation|
|lymphocyte differentiation|
|cell recognition|
|kidney development|
|transcription coactivator activity|
|renal system development|
|peptidyl-lysine modification|
|camera-type eye development|
|angiogenesis|
|urogenital system development|
|regulation of mRNA metabolic process|
|phagocytosis|
|leukocyte differentiation|
|protein homooligomerization|
|eye development|
|visual system development|
|histone modification|
|sensory system development|
|covalent chromatin modification|
|lymphocyte activation|
|RNA splicing|
|blood vessel morphogenesis|
|mRNA processing|
|blood vessel development|
|vasculature development|
|cardiovascular system development|
|protein complex oligomerization|
|heart development|
|sensory organ development|
|endocytosis|
|hemopoiesis|
|myeloid leukocyte activation|
|hematopoietic or lymphoid organ development|
|immune system development|
|tube morphogenesis|
|import into cell|
|mRNA metabolic process|
|chromatin organization|
|tube development|
|nucleolus|
|circulatory system development|
|RNA processing|
|protein homodimerization activity|
|peptidyl-amino acid modification|
|anatomical structure formation involved in morphogenesis|
|leukocyte activation|
|oxidation-reduction process|
|chromosome organization|
|identical protein binding|
|cell activation|
|positive regulation of transcription by RNA polymerase II|
|RNA binding|
|positive regulation of transcription, DNA-templated|
|protein-containing complex assembly|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|homeostatic process|
|cell development|
|RNA metabolic process|
|positive regulation of RNA metabolic process|
|protein-containing complex subunit organization|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|vesicle-mediated transport|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|gene expression|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='primary' size='small' modal='Most_Correlated_Genes'>Most Correlated Genes in Chemogenomics</button>
<button type='primary' size='small' modal='Essential_Avana'>Tissues where Essential in the Avana Dataset (DepMap 20Q1)</button>

<modal id='Compound_Hit' size='lg' title='Compound Hit'>
^Screen^Score^
|[[:results:exp35|TRAIL 5ng/ml R00 exp35]]|-2.11|
|[[:results:exp5|Alpha-Amanitin 0.5μM R00 exp5]]|-1.96|
|[[:results:exp454|Bafilomycin-A1 0.009μM R08 exp454]]|-1.94|
|[[:results:exp485|GSK626616 14μM R08 exp485]]|-1.93|
|[[:results:exp36|TRAIL 50ng/ml R00 exp36]]|-1.93|
|[[:results:exp81|Selumetinib 20μM R02 exp81]]|-1.8|
|[[:results:exp180|Dynasore 10μM R04 exp180]]|-1.77|
|[[:results:exp243|S-trityl-L-cysteine 0.5μM R05 exp243]]|-1.73|
|[[:results:exp321|ABT-702 5μM plus Deferoxamine 11μM R07 exp321]]|-1.72|
|[[:results:exp518|RK-33 8μM R08 exp518]]|1.71|
|[[:results:exp505|ML-792 0.2μM R08 exp505]]|2.06|
|[[:results:exp458|Bisphenol S 100μM R08 exp458]]|2.29|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:s:spen|SPEN]]|0.401|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 23/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|1/28|
|blood|1/28|
|bone|0/25|
|breast|6/33|
|central nervous system|1/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|1/15|
|kidney|1/21|
|liver|1/20|
|lung|2/75|
|lymphocyte|0/14|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|1/24|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|1/22|
|urinary tract|3/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 4492
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.98 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='JMJD6 Expression in NALM6 Cells: 4.98'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>