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ONTOLOGY REPORT - ANNOTATIONS


Term:DNA methylation
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Accession:GO:0006306 term browser browse the term
Definition:The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine.
Synonyms:xref: Wikipedia:DNA_methylation
 never_in_taxon: NCBITaxon:4895 ! Schizosaccharomyces;   NCBITaxon:4930 ! Saccharomyces


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DNA methylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Atf7ip activating transcription factor 7 interacting protein JBrowse link 4 170,476,998 170,563,063 RGD:1624291
G Baz2a bromodomain adjacent to zinc finger domain, 2A JBrowse link 7 2,518,267 2,548,840 RGD:1624291
G Bend3 BEN domain containing 3 JBrowse link 20 48,248,193 48,270,905 RGD:1624291
G Bmi1 BMI1 proto-oncogene, polycomb ring finger JBrowse link 17 85,360,439 85,370,283 RGD:1624291
G Ctcf CCCTC-binding factor JBrowse link 19 37,600,151 37,649,674 RGD:1600115
RGD:1624291
G Cyp1a1 cytochrome P450, family 1, subfamily a, polypeptide 1 JBrowse link 8 62,472,087 62,478,122 RGD:25823175
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:1624291
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:8554662
RGD:1624291
G Dnmt3b DNA methyltransferase 3 beta JBrowse link 3 149,131,541 149,170,061 RGD:1624291
G Dnmt3l DNA methyltransferase 3 like JBrowse link 20 11,344,513 11,359,090 RGD:1624291
G Ehmt1 euchromatic histone lysine methyltransferase 1 JBrowse link 3 1,966,974 2,123,858 RGD:1624291
G Ehmt2 euchromatic histone lysine methyltransferase 2 JBrowse link 20 4,576,033 4,592,980 RGD:1624291
G Ezh2 enhancer of zeste 2 polycomb repressive complex 2 subunit JBrowse link 4 77,284,404 77,347,011 RGD:1624291
G Gnas GNAS complex locus JBrowse link 3 172,374,957 172,434,988 RGD:1624291
G Hells helicase, lymphoid specific JBrowse link 1 257,901,856 257,953,889 RGD:1624291
RGD:13792537
G Kmt2a lysine methyltransferase 2A JBrowse link 8 49,110,407 49,185,872 RGD:1624291
G Kmt2e lysine methyltransferase 2E JBrowse link 4 8,187,751 8,255,578 RGD:1624291
G LOC100911660 lymphocyte-specific helicase-like JBrowse link 1 257,614,688 257,660,184 RGD:13792537
G Mta2 metastasis associated 1 family, member 2 JBrowse link 1 225,140,863 225,149,584 RGD:1624291
G Mtr 5-methyltetrahydrofolate-homocysteine methyltransferase JBrowse link 17 66,210,444 66,295,014 RGD:10054082
G Mtrr 5-methyltetrahydrofolate-homocysteine methyltransferase reductase JBrowse link 1 37,743,089 37,774,485 RGD:1624291
RGD:1600115
G Ppm1d protein phosphatase, Mg2+/Mn2+ dependent, 1D JBrowse link 10 72,909,550 72,945,884 RGD:1624291
C-5 methylation of cytosine term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:1600115
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:1600115
G Dnmt3b DNA methyltransferase 3 beta JBrowse link 3 149,131,541 149,170,061 RGD:1624291
G Stpg4 sperm-tail PG-rich repeat containing 4 JBrowse link 6 11,014,596 11,063,509 RGD:1624291
DNA demethylation of male pronucleus term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Stpg4 sperm-tail PG-rich repeat containing 4 JBrowse link 6 11,014,596 11,063,509 RGD:1624291
G Tet3 tet methylcytosine dioxygenase 3 JBrowse link 4 115,060,702 115,160,800 RGD:1624291
DNA hypermethylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:9588311
G Morc1 MORC family CW-type zinc finger 1 JBrowse link 11 54,762,654 55,044,581 RGD:1624291
DNA methylation involved in embryo development term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:1600115
RGD:1624291
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:1624291
G Dnmt3b DNA methyltransferase 3 beta JBrowse link 3 149,131,541 149,170,061 RGD:1624291
G Trim28 tripartite motif-containing 28 JBrowse link 1 65,544,369 65,551,043 RGD:1624291
G Zfp57 zinc finger protein 57 JBrowse link 20 2,014,177 2,020,488 RGD:1624291
RGD:1600115
DNA methylation involved in gamete generation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Asz1 ankyrin repeat, SAM and basic leucine zipper domain containing 1 JBrowse link 4 45,358,574 45,414,177 RGD:1624291
G Ctcfl CCCTC-binding factor like JBrowse link 3 171,145,203 171,168,375 RGD:1624291
G Ddx4 DEAD-box helicase 4 JBrowse link 2 44,447,610 44,504,263 RGD:1624291
RGD:1600115
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:1624291
G Dnmt3l DNA methyltransferase 3 like JBrowse link 20 11,344,513 11,359,090 RGD:1624291
RGD:1600115
G Fkbp6 FKBP prolyl isomerase 6 JBrowse link 12 24,365,941 24,438,088 RGD:1624291
RGD:1600115
G Kdm1b lysine demethylase 1B JBrowse link 17 17,987,972 18,028,808 RGD:1624291
G Mael maelstrom spermatogenic transposon silencer JBrowse link 13 84,412,569 84,452,140 RGD:1624291
G Morc1 MORC family CW-type zinc finger 1 JBrowse link 11 54,762,654 55,044,581 RGD:1624291
G Mov10l1 Mov10 like RISC complex RNA helicase 1 JBrowse link 7 129,973,391 130,039,306 RGD:1624291
G Piwil2 piwi-like RNA-mediated gene silencing 2 JBrowse link 15 52,037,693 52,116,277 RGD:1624291
G Piwil4 piwi-like RNA-mediated gene silencing 4 JBrowse link 8 13,208,774 13,251,970 RGD:1600115
RGD:1624291
G Pld6 phospholipase D family, member 6 JBrowse link 10 46,142,313 46,145,774 RGD:1624291
G Prmt7 protein arginine methyltransferase 7 JBrowse link 19 38,189,605 38,237,155 RGD:1624291
RGD:1600115
G Tdrd1 tudor domain containing 1 JBrowse link 1 277,639,670 277,685,236 RGD:1624291
G Tdrd12 tudor domain containing 12 JBrowse link 1 91,739,126 91,811,577 RGD:1624291
G Tdrd5 tudor domain containing 5 JBrowse link 13 73,872,637 73,922,640 RGD:1600115
RGD:1624291
G Tdrd9 tudor domain containing 9 JBrowse link 6 136,536,636 136,650,481 RGD:1624291
RGD:1600115
G Tdrkh tudor and KH domain containing JBrowse link 2 195,649,813 195,674,217 RGD:1624291
DNA methylation on adenine term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Mettl4 methyltransferase like 4 JBrowse link 9 119,871,519 119,953,248 RGD:1624291
G N6amt1 N-6 adenine-specific DNA methyltransferase 1 JBrowse link 11 27,004,335 27,016,690 RGD:1624291
DNA methylation on cytosine term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:9588218
RGD:1624291
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:9588218
G Dnmt3l DNA methyltransferase 3 like JBrowse link 20 11,344,513 11,359,090 RGD:1624291
RGD:1600115
DNA methylation on cytosine within a CG sequence term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt1 DNA methyltransferase 1 JBrowse link 8 21,922,515 21,968,495 RGD:2301219
G Ehmt2 euchromatic histone lysine methyltransferase 2 JBrowse link 20 4,576,033 4,592,980 RGD:1624291
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 JBrowse link 8 22,648,323 22,739,468 RGD:1624291
hypermethylation of CpG island term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt3a DNA methyltransferase 3 alpha JBrowse link 6 28,205,375 28,346,052 RGD:1624291
G Gsk3a glycogen synthase kinase 3 alpha JBrowse link 1 82,097,244 82,108,238 RGD:1624291
G Gsk3b glycogen synthase kinase 3 beta JBrowse link 11 65,060,884 65,208,842 RGD:1624291
G Spi1 Spi-1 proto-oncogene JBrowse link 3 79,918,127 79,937,708 RGD:1624291
hypomethylation of CpG island term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Pik3ca phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha JBrowse link 2 118,831,350 118,861,456 RGD:1624291
G Zmpste24 zinc metallopeptidase STE24 JBrowse link 5 139,982,404 140,015,541 RGD:1624291
negative regulation of DNA methylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt3l DNA methyltransferase 3 like JBrowse link 20 11,344,513 11,359,090 RGD:1624291
RGD:1600115
G Kmt2a lysine methyltransferase 2A JBrowse link 8 49,110,407 49,185,872 RGD:1624291
positive regulation of DNA methylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dnmt3l DNA methyltransferase 3 like JBrowse link 20 11,344,513 11,359,090 RGD:1624291
RGD:1600115
G Mecp2 methyl CpG binding protein 2 JBrowse link X 156,650,389 156,713,813 RGD:1624291
RGD:1600115
G Myc MYC proto-oncogene, bHLH transcription factor JBrowse link 7 102,586,313 102,591,240 RGD:1624291
G Wt1 WT1 transcription factor JBrowse link 3 95,133,221 95,180,574 RGD:1624291
RGD:1600115
protection of DNA demethylation of female pronucleus term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G AABR07015759.1 RGD:13792537
G AABR07017902.2 RGD:13792537
G AABR07026842.1 RGD:13792537
G AABR07058017.1 RGD:13792537
G AABR07061871.1 RGD:13792537
G Dppa3 developmental pluripotency-associated 3 JBrowse link 4 155,437,675 155,441,059 RGD:1600115
RGD:13792537
RGD:1624291
G Dppa3l1 developmental pluripotency associated 3-like 1 JBrowse link 8 60,683,180 60,683,658 RGD:13792537
G LOC679766 similar to developmental pluripotency-associated 3 JBrowse link 14 74,094,652 74,095,296 RGD:13792537
regulation of DNA methylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Brca1 BRCA1, DNA repair associated JBrowse link 10 89,394,821 89,455,093 RGD:1624291
RGD:1600115
G Ehmt2 euchromatic histone lysine methyltransferase 2 JBrowse link 20 4,576,033 4,592,980 RGD:9588218
G Ftx FTX transcript, XIST regulator JBrowse link X 74,440,265 74,484,164 RGD:1624291
G Grhl2 grainyhead-like transcription factor 2 JBrowse link 7 76,058,623 76,197,360 RGD:1624291
G H1f8 H1.8 linker histone JBrowse link 4 147,844,658 147,849,779 RGD:1624291
RGD:1600115
G Kdm1b lysine demethylase 1B JBrowse link 17 17,987,972 18,028,808 RGD:1624291
G Mbd1 methyl-CpG binding domain protein 1 JBrowse link 18 70,248,568 70,263,190 RGD:9588647
G Mbd2 methyl-CpG binding domain protein 2 JBrowse link 18 65,814,026 65,885,115 RGD:9588647
G Mbd3 methyl-CpG binding domain protein 3 JBrowse link 7 12,179,046 12,186,251 RGD:9588647
G Mecp2 methyl CpG binding protein 2 JBrowse link X 156,650,389 156,713,813 RGD:9588647
G Mis18a MIS18 kinetochore protein A JBrowse link 11 30,880,231 30,893,262 RGD:1624291
G Mphosph8 M-phase phosphoprotein 8 JBrowse link 15 36,918,843 36,946,712 RGD:1624291
RGD:1600115
G Parp1 poly (ADP-ribose) polymerase 1 JBrowse link 13 98,857,255 98,889,444 RGD:10413908
G Prdm14 PR/SET domain 14 JBrowse link 5 5,710,076 5,730,560 RGD:1624291
G Prmt5 protein arginine methyltransferase 5 JBrowse link 15 33,156,508 33,165,893 RGD:9491827
G Rlf RLF zinc finger JBrowse link 5 140,107,144 140,162,698 RGD:1624291
G Tet1 tet methylcytosine dioxygenase 1 JBrowse link 20 27,359,122 27,438,039 RGD:1624291
G Zmpste24 zinc metallopeptidase STE24 JBrowse link 5 139,982,404 140,015,541 RGD:1624291

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19858
    metabolic process 12096
      methylation 364
        macromolecule methylation 333
          DNA methylation 76
            DNA methylation involved in embryo development + 15
            DNA methylation involved in gamete generation 19
            DNA methylation on adenine 2
            DNA methylation on cytosine + 7
            negative regulation of DNA methylation 2
            positive regulation of DNA methylation 4
            regulation of DNA methylation + 37
Path 2
Term Annotations click to browse term
  biological_process 19858
    cellular process 18617
      cellular metabolic process 10917
        cellular nitrogen compound metabolic process 6542
          nucleobase-containing compound metabolic process 5344
            nucleic acid metabolic process 4850
              DNA metabolic process 911
                DNA modification 105
                  DNA methylation or demethylation 93
                    DNA methylation 76
                      DNA methylation involved in embryo development + 15
                      DNA methylation involved in gamete generation 19
                      DNA methylation on adenine 2
                      DNA methylation on cytosine + 7
                      negative regulation of DNA methylation 2
                      positive regulation of DNA methylation 4
                      regulation of DNA methylation + 37
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.