Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources

ONTOLOGY REPORT - ANNOTATIONS

Term:facultative heterochromatin formation
go back to main search page
Accession:GO:0140718 term browser browse the term
Definition:The compaction of chromatin into a conformation that is refactory to transcription but that be converted to euchromatin and allow transcription in specific contexts. These can be temporal (e.g., developmental states or specific cell-cycle stages), spatial (e.g., nuclear localization changes from the center to the periphery or vice versa due to exogenous factors/signals), or parental/heritable (e.g., monoallelic gene expression).
Comment:Note that facultative heterochromatin can be reprogrammed, as opposed to constitutive heterochromatin which usually cannot be reprogrammed to a transcriptionally-competent state.
Synonyms:exact_synonym: fHC assembly;   facultative heterochromatin assembly

GViewer not supported for the selected species.

show annotations for term's descendants           Sort by:
facultative heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eed embryonic ectoderm development involved_in ISO (MGI:4431292|PMID:20064375), (MGI:4436818|PMID:20064376) GO_Central PMID:20064375 PMID:20064376 MGI:4431292 MGI:4436818 NCBI chrNW_004936498:14,050,731...14,082,410
Ensembl chrNW_004936498:14,051,045...14,083,570 		JBrowse link
G Ehmt1 euchromatic histone lysine methyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936669:321,580...450,061
Ensembl chrNW_004936669:321,249...423,018 		JBrowse link
G Ezh1 enhancer of zeste 1 polycomb repressive complex 2 subunit involved_in ISO (MGI:4436818|PMID:20064376) GO_Central PMID:20064376 MGI:4436818 NCBI chrNW_004936490:17,430,383...17,465,889
Ensembl chrNW_004936490:17,428,677...17,465,877 		JBrowse link
G Ezh2 enhancer of zeste 2 polycomb repressive complex 2 subunit involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936527:5,024,077...5,069,152
Ensembl chrNW_004936527:5,024,068...5,063,939 		JBrowse link
G Jarid2 jumonji and AT-rich interaction domain containing 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936552:1,566,382...1,786,837
Ensembl chrNW_004936552:1,566,788...1,785,490 		JBrowse link
G Kdm5a lysine demethylase 5A involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936606:486,424...570,546
Ensembl chrNW_004936606:485,655...570,739 		JBrowse link
G Suz12 SUZ12 polycomb repressive complex 2 subunit involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936538:2,921,987...2,971,521
Ensembl chrNW_004936538:2,921,719...2,971,552 		JBrowse link
DNA methylation-dependent heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bend3 BEN domain containing 3 involved_in ISO (PMID:26100909) UniProt PMID:26100909 NCBI chrNW_004936564:3,495,020...3,513,684
Ensembl chrNW_004936564:3,496,392...3,513,671 		JBrowse link
G Bmi1 BMI1 proto-oncogene, polycomb ring finger acts_upstream_of_or_within ISO (PMID:24105743) MGI PMID:24105743 NCBI chrNW_004936520:5,707,542...5,716,966
Ensembl chrNW_004936520:5,707,778...5,717,024 		JBrowse link
G Ctcf CCCTC-binding factor acts_upstream_of_or_within ISO (PMID:24105743) MGI PMID:24105743 NCBI chrNW_004936475:17,987,137...18,031,733
Ensembl chrNW_004936475:17,987,156...18,031,760 		JBrowse link
G Dnmt1 DNA methyltransferase 1 involved_in IEA Ensembl
InterPro		 GO_REF:0000002 GO_REF:0000107 NCBI chrNW_004936659:520,181...565,496
Ensembl chrNW_004936659:520,493...565,416 		JBrowse link
G Dnmt3a DNA methyltransferase 3 alpha involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:17938196)
(PMID:16322236)		 Ensembl
MGI		 PMID:16322236 PMID:17938196 GO_REF:0000107 NCBI chrNW_004936493:6,963,406...7,013,256
Ensembl chrNW_004936493:6,935,386...7,007,610 		JBrowse link
G Dnmt3b DNA methyltransferase 3 beta acts_upstream_of_or_within ISO (PMID:17938196) MGI PMID:17938196 NCBI chrNW_004936485:19,547,836...19,570,716 JBrowse link
G Dnmt3l DNA methyltransferase 3 like involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936500:143,078...160,318
Ensembl chrNW_004936500:143,078...160,212 		JBrowse link
G Ehmt1 euchromatic histone lysine methyltransferase 1 involved_in ISO (MGI:3826717|PMID:18818694) UniProt PMID:18818694 MGI:3826717 NCBI chrNW_004936669:321,580...450,061
Ensembl chrNW_004936669:321,249...423,018 		JBrowse link
G Ehmt2 euchromatic histone lysine methyltransferase 2 involved_in ISO (MGI:3826717|PMID:18818694) UniProt PMID:18818694 MGI:3826717 NCBI chrNW_004936727:1,648,451...1,663,294
Ensembl chrNW_004936727:1,648,448...1,663,455 		JBrowse link
G Ezh2 enhancer of zeste 2 polycomb repressive complex 2 subunit acts_upstream_of_or_within ISO (PMID:24105743) MGI PMID:24105743 NCBI chrNW_004936527:5,024,077...5,069,152
Ensembl chrNW_004936527:5,024,068...5,063,939 		JBrowse link
G Hdac1 histone deacetylase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936474:15,320,635...15,351,418
Ensembl chrNW_004936474:15,320,729...15,350,860 		JBrowse link
G Hells helicase, lymphoid specific involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936601:626,354...662,477
Ensembl chrNW_004936601:626,823...662,465 		JBrowse link
G Kmt2b lysine methyltransferase 2B acts_upstream_of_or_within ISO (PMID:20808952) MGI PMID:20808952 NCBI chrNW_004936570:583,616...605,846
Ensembl chrNW_004936570:583,616...605,603 		JBrowse link
G Mbd1 methyl-CpG binding domain protein 1 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936497:12,848,918...12,868,504
Ensembl chrNW_004936497:12,848,874...12,871,639 		JBrowse link
G Mbd2 methyl-CpG binding domain protein 2 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936497:9,512,350...9,619,250
Ensembl chrNW_004936497:9,545,907...9,619,267 		JBrowse link
G Mbd3 methyl-CpG binding domain protein 3 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:16322236) TreeGrafter
MGI		 PMID:16322236 GO_REF:0000118 NCBI chrNW_004936588:865,046...873,821
Ensembl chrNW_004936588:864,867...874,923 		JBrowse link
G Ppm1d protein phosphatase, Mg2+/Mn2+ dependent 1D involved_in ISO (MGI:5551345|PMID:24135283) UniProt PMID:24135283 MGI:5551345 NCBI chrNW_004936490:2,139,201...2,183,850
Ensembl chrNW_004936490:2,139,078...2,184,602 		JBrowse link
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 acts_upstream_of_or_within ISO (PMID:16322236) MGI PMID:16322236 NCBI chrNW_004936659:1,152,846...1,246,718
Ensembl chrNW_004936659:1,169,792...1,249,213 		JBrowse link
G Tex15 testis expressed 15, meiosis and synapsis associated acts_upstream_of_or_within_positive_effect ISO (MGI:6434559|PMID:32381626) UniProt PMID:32381626 MGI:6434559 NCBI chrNW_004936792:668,290...727,197
Ensembl chrNW_004936792:668,290...686,241 		JBrowse link
negative regulation of DNA methylation-dependent heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dnmt3l DNA methyltransferase 3 like involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936500:143,078...160,318
Ensembl chrNW_004936500:143,078...160,212 		JBrowse link
G Dyrk1a dual specificity tyrosine phosphorylation regulated kinase 1A involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936500:5,317,109...5,423,593
Ensembl chrNW_004936500:5,316,164...5,404,353 		JBrowse link
G Kmt2a lysine methyltransferase 2A involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936542:3,480,071...3,566,823
Ensembl chrNW_004936542:3,391,774...3,562,147 		JBrowse link
negative regulation of rDNA heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Phf2 PHD finger protein 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936487:2,912,114...2,956,429
Ensembl chrNW_004936487:2,912,112...2,954,525 		JBrowse link
G Phf8 PHD finger protein 8 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936751:850,630...935,382
Ensembl chrNW_004936751:850,237...934,586 		JBrowse link
positive regulation of DNA methylation-dependent heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atf7ip activating transcription factor 7 interacting protein involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936587:2,922,855...3,026,773
Ensembl chrNW_004936587:2,919,666...3,026,837 		JBrowse link
G Atf7ip2 activating transcription factor 7 interacting protein 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936530:8,795,303...8,832,683
Ensembl chrNW_004936530:8,796,077...8,830,847 		JBrowse link
G LOC101978403 histone-lysine N-methyltransferase SETDB2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936565:2,536,623...2,607,824
Ensembl chrNW_004936565:2,591,305...2,606,130
Ensembl chrNW_004936565:2,591,305...2,606,130 		JBrowse link
G Morc2 MORC family CW-type zinc finger 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936755:133,315...171,507
Ensembl chrNW_004936755:130,983...171,492 		JBrowse link
G Mphosph8 M-phase phosphoprotein 8 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936720:1,972,063...2,025,283
Ensembl chrNW_004936720:1,972,119...2,025,332 		JBrowse link
G Pphln1 periphilin 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936512:1,001,733...1,158,647
Ensembl chrNW_004936512:1,057,128...1,158,650 		JBrowse link
G Resf1 retroelement silencing factor 1 involved_in ISO (MGI:6271895|PMID:29728365) UniProt PMID:29728365 MGI:6271895 NCBI chrNW_004936607:4,247,824...4,274,410 JBrowse link
G Setdb1 SET domain bifurcated histone lysine methyltransferase 1 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936580:1,146,286...1,192,842
Ensembl chrNW_004936580:1,146,277...1,192,842 		JBrowse link
G Tasor transcription activation suppressor involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936473:7,053,797...7,098,608
Ensembl chrNW_004936473:7,055,462...7,098,358 		JBrowse link
G Trim28 tripartite motif containing 28 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004937062:126,832...132,938
Ensembl chrNW_004937062:126,708...134,366 		JBrowse link
G Znf304 zinc finger protein 304 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936897:244,051...253,580
Ensembl chrNW_004936897:243,884...254,033 		JBrowse link
rDNA heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Baz2a bromodomain adjacent to zinc finger domain 2A involved_in
acts_upstream_of_or_within		 ISO (MGI:3587127|PMID:16085498), (MGI:3852313|PMID:12198165), (MGI:3852588|PMID:19578370)
(PMID:20168299)
(PMID:16678107)		 UniProt
MGI		 PMID:12198165 PMID:16085498 PMID:16678107 PMID:19578370 PMID:20168299 MGI:3587127 MGI:3852313 MGI:3852588 NCBI chrNW_004936646:914,944...949,057
Ensembl chrNW_004936646:914,818...949,101 		JBrowse link
G Bend3 BEN domain containing 3 involved_in IEA InterPro
TreeGrafter
Ensembl		 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936564:3,495,020...3,513,684
Ensembl chrNW_004936564:3,496,392...3,513,671 		JBrowse link
G Rrp8 ribosomal RNA processing 8 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936842:656,508...661,894
Ensembl chrNW_004936842:657,727...661,757 		JBrowse link
G Sirt1 sirtuin 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936521:10,296,097...10,316,673
Ensembl chrNW_004936521:10,296,097...10,322,215 		JBrowse link
G Smarca5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936535:4,857,816...4,890,266
Ensembl chrNW_004936535:4,856,672...4,890,225 		JBrowse link
G Suv39h1 SUV39H1 histone lysine methyltransferase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936721:646,778...661,144
Ensembl chrNW_004936721:646,772...661,091 		JBrowse link
regulation of DNA methylation-dependent heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Kdm1a lysine demethylase 1A involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936474:8,262,913...8,319,089
Ensembl chrNW_004936474:8,262,885...8,319,092 		JBrowse link
G L3mbtl3 L3MBTL histone methyl-lysine binding protein 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936790:1,210,842...1,298,577
Ensembl chrNW_004936790:1,212,536...1,298,566 		JBrowse link
G Samd1 sterile alpha motif domain containing 1 involved_in ISO (PMID:33980486) UniProt PMID:33980486 NCBI chrNW_004936659:2,744,967...2,750,135 JBrowse link
regulation of rDNA heterochromatin formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC101971629 core histone macro-H2A.1 NOT|involved_in ISO (PMID:24071584) UniProt PMID:24071584 NCBI chrNW_004936597:2,496,489...2,556,352
Ensembl chrNW_004936597:2,495,862...2,556,603 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 15969
    metabolic process 9630
      negative regulation of metabolic process 2630
        negative regulation of macromolecule metabolic process 2404
          negative regulation of macromolecule biosynthetic process 2047
            negative regulation of gene expression 1055
              negative regulation of gene expression, epigenetic 136
                heterochromatin formation 106
                  facultative heterochromatin formation 48
                    DNA methylation-dependent heterochromatin formation + 35
                    rDNA heterochromatin formation + 9
                    siRNA-independent facultative heterochromatin formation + 0
                    siRNA-mediated facultative heterochromatin formation + 0
Path 2
Term Annotations click to browse term
  biological_process 15969
    biological regulation 11154
      regulation of biological process 10818
        regulation of metabolic process 5604
          regulation of biosynthetic process 4525
            regulation of cellular biosynthetic process 4439
              regulation of macromolecule biosynthetic process 4344
                regulation of gene expression 4232
                  negative regulation of gene expression 1055
                    negative regulation of gene expression, epigenetic 136
                      heterochromatin formation 106
                        facultative heterochromatin formation 48
                          DNA methylation-dependent heterochromatin formation + 35
                          rDNA heterochromatin formation + 9
                          siRNA-independent facultative heterochromatin formation + 0
                          siRNA-mediated facultative heterochromatin formation + 0
paths to the root