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ONTOLOGY REPORT - ANNOTATIONS


Term:chromatin DNA binding
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Accession:GO:0031490 term browser browse the term
Definition:Interacting selectively and non-covalently with DNA that is assembled into chromatin.


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chromatin DNA binding term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ACTN4 actinin alpha 4 IEA Ensembl GO_REF:0000107 NCBI chr 6:47,493,834...47,565,999
Ensembl chr 6:47,493,882...47,569,609
JBrowse link
G APEX1 apurinic/apyrimidinic endodeoxyribonuclease 1 IEA Ensembl GO_REF:0000107 NCBI chr 7:78,451,845...78,454,938
Ensembl chr 7:78,451,851...78,454,938
JBrowse link
G ATOH1 atonal bHLH transcription factor 1 IEA Ensembl GO_REF:0000107 NCBI chr 8:125,768,232...125,770,619
Ensembl chr 8:125,769,246...125,770,307
JBrowse link
G BCL6 BCL6 transcription repressor IEA Ensembl GO_REF:0000107 NCBI chr13:125,377,247...125,401,328
Ensembl chr13:125,377,248...125,393,330
JBrowse link
G CLOCK clock circadian regulator IEA Ensembl GO_REF:0000107 NCBI chr 8:54,793,323...54,910,192
Ensembl chr 8:54,788,864...54,910,146
JBrowse link
G CREBBP CREB binding protein IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:38,388,366...38,530,243
Ensembl chr 3:38,388,547...38,530,230
JBrowse link
G DHX9 DExH-box helicase 9 IEA Ensembl GO_REF:0000107 NCBI chr 9:124,141,929...124,183,838
Ensembl chr 9:124,093,667...124,185,352
JBrowse link
G EP300 E1A binding protein p300 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:7,311,165...7,394,515
Ensembl chr 5:7,311,171...7,393,760
JBrowse link
G EZH2 enhancer of zeste 2 polycomb repressive complex 2 subunit IEA Ensembl GO_REF:0000107 NCBI chr 9:109,384,976...109,450,943
Ensembl chr 9:109,384,995...109,450,941
JBrowse link
G FOXC2 forkhead box C2 IEA Ensembl GO_REF:0000107 NCBI chr 6:2,552,141...2,555,041
Ensembl chr 6:2,552,862...2,554,367
JBrowse link
G FOXO3 forkhead box O3 IEA Ensembl GO_REF:0000107 NCBI chr 1:74,626,673...74,760,323
Ensembl chr 1:74,628,217...74,760,328
JBrowse link
G GATA1 GATA binding protein 1 IEA Ensembl GO_REF:0000107 NCBI chr  X:42,898,431...42,905,939
Ensembl chr  X:42,898,442...42,905,976
JBrowse link
G GRHL1 grainyhead like transcription factor 1 IEA Ensembl GO_REF:0000107 NCBI chr 3:126,462,946...126,511,185
Ensembl chr 3:126,464,198...126,511,211
JBrowse link
G GRHL2 grainyhead like transcription factor 2 IEA Ensembl GO_REF:0000107 NCBI chr 4:35,368,788...35,565,394
Ensembl chr 4:35,371,136...35,564,919
JBrowse link
G GRHL3 grainyhead like transcription factor 3 IEA Ensembl GO_REF:0000107 NCBI chr 6:82,014,022...82,050,240
Ensembl chr 6:82,014,046...82,050,236
JBrowse link
G H1-1 H1.1 linker histone, cluster member ISO (PMID:15911621) UniProtKB PMID:15911621 NCBI chr 7:20,717,123...20,717,916 JBrowse link
G H1-2 H1.2 linker histone, cluster member ISO (PMID:15911621) UniProtKB PMID:15911621 NCBI chr 7:20,743,716...20,744,356
Ensembl chr 7:20,743,716...20,744,356
JBrowse link
G H1-3 H1.3 linker histone, cluster member IEA Ensembl GO_REF:0000107 Ensembl chr 7:20,862,942...20,882,693 JBrowse link
G H1-5 H1.5 linker histone, cluster member ISO (PMID:15911621), (PMID:22956909) UniProtKB PMID:15911621, PMID:22956909 NCBI chr 7:21,621,863...21,622,646 JBrowse link
G H2AFY H2A histone family, member Y IEA UniProt GO_REF:0000104 NCBI chr 2:137,535,128...137,623,886
Ensembl chr 2:137,535,131...137,623,889
JBrowse link
G H2AFZ H2A histone family, member Z ISO (PMID:19834540), (PMID:23637611) UniProtKB PMID:19834540, PMID:23637611 NCBI chr 8:120,563,752...120,566,023
Ensembl chr 8:120,563,752...120,566,034
JBrowse link
G HDAC2 histone deacetylase 2 ISO (MGI:3796777|PMID:18458156) MGI PMID:18458156 MGI:3796777 NCBI chr 1:79,867,713...79,901,597
Ensembl chr 1:79,863,094...79,901,585
JBrowse link
G HDAC3 histone deacetylase 3 ISO (MGI:3796777|PMID:18458156) MGI PMID:18458156 MGI:3796777 NCBI chr 2:143,273,188...143,287,421
Ensembl chr 2:143,273,191...143,287,387
JBrowse link
G HNRNPU heterogeneous nuclear ribonucleoprotein U IEA Ensembl GO_REF:0000107 NCBI chr10:17,475,266...17,497,060
Ensembl chr10:17,475,270...17,497,130
JBrowse link
G HR HR lysine demethylase and nuclear receptor corepressor IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:6,386,900...6,404,968
Ensembl chr14:6,386,902...6,407,032
JBrowse link
G HSF1 heat shock transcription factor 1 IEA Ensembl GO_REF:0000107 NCBI chr 4:463,531...486,483
Ensembl chr 4:461,559...486,473
JBrowse link
G INSM1 INSM transcriptional repressor 1 ISO (PMID:16569215), (PMID:18417529) UniProtKB PMID:16569215, PMID:18417529 NCBI chr17:28,379,529...28,382,554 JBrowse link
G JMJD1C jumonji domain containing 1C IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:66,640,845...66,966,911
Ensembl chr14:66,640,849...66,967,077
JBrowse link
G KDM3A lysine demethylase 3A IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:58,300,109...58,355,000
Ensembl chr 3:58,299,706...58,354,941
JBrowse link
G KDM5A lysine demethylase 5A IEA Ensembl GO_REF:0000107 NCBI chr 5:67,628,791...67,716,143
Ensembl chr 5:67,629,380...67,716,651
JBrowse link
G KDM6A lysine demethylase 6A IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:39,953,764...40,154,197
Ensembl chr  X:39,953,759...40,154,194
JBrowse link
G LEMD2 LEM domain nuclear envelope protein 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 7:29,980,394...29,997,077
Ensembl chr 7:29,980,395...29,997,356
JBrowse link
G LEMD3 LEM domain containing 3 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:29,596,334...29,672,704
Ensembl chr 5:29,596,334...29,673,875
JBrowse link
G LOC100510904 histone H1.0 ISO (PMID:15911621) UniProtKB PMID:15911621 NCBI chr 5:10,038,944...10,041,242
Ensembl chr 5:10,038,951...10,041,080
JBrowse link
G LOC100627380 lysine-specific demethylase 4D-like ISO (MGI:55267|PMID:6953429) MGI PMID:6953429 MGI:55267 NCBI chr 9:27,083,348...27,085,693 JBrowse link
G MACROH2A2 macroH2A.2 histone IEA UniProt GO_REF:0000104 NCBI chr14:73,002,385...73,055,228
Ensembl chr14:73,003,117...73,055,226
JBrowse link
G MECP2 methyl-CpG binding protein 2 ISO RGD PMID:9038338 RGD:1601325 NCBI chr  X:124,735,523...124,789,063
Ensembl chr  X:124,735,656...124,789,110
JBrowse link
G MED1 mediator complex subunit 1 ISO RGD PMID:20702579 RGD:5128544 NCBI chr12:22,830,405...22,872,420
Ensembl chr12:22,839,005...22,872,407
JBrowse link
G MYOD1 myogenic differentiation 1 ISS
IEA
UniProt
Ensembl
GO_REF:0000024, GO_REF:0000107 NCBI chr 2:41,422,522...41,424,236
Ensembl chr 2:41,415,735...41,425,234
JBrowse link
G MYOG myogenin IEA Ensembl GO_REF:0000107 NCBI chr 9:113,783,233...113,785,312
Ensembl chr 9:113,782,469...113,785,362
JBrowse link
G NEUROG3 neurogenin 3 IEA Ensembl GO_REF:0000107 NCBI chr14:72,604,203...72,606,362
Ensembl chr14:72,604,467...72,606,360
JBrowse link
G NKAP NFKB activating protein IEA Ensembl GO_REF:0000107 NCBI chr  X:98,233,504...98,276,839
Ensembl chr  X:98,227,659...98,276,812
JBrowse link
G NOTCH1 notch receptor 1 IEA Ensembl GO_REF:0000107
G PER1 period circadian regulator 1 IEA Ensembl GO_REF:0000107 NCBI chr12:53,361,863...53,376,723
Ensembl chr12:53,361,868...53,376,611
JBrowse link
G PITX2 paired like homeodomain 2 ISO (MGI:4881620|PMID:21035439) MGI PMID:21035439 MGI:4881620 NCBI chr 8:111,697,364...111,723,295
Ensembl chr 8:111,698,664...111,723,298
JBrowse link
G POLE3 DNA polymerase epsilon 3, accessory subunit IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 1:254,033,378...254,036,224 JBrowse link
G POU5F1 POU class 5 homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr 7:23,564,654...23,570,691 JBrowse link
G PPARGC1A PPARG coactivator 1 alpha ISS UniProt GO_REF:0000024 NCBI chr 8:17,841,844...18,527,953
Ensembl chr 8:17,841,844...17,961,909
JBrowse link
G PRDM14 PR/SET domain 14 IEA Ensembl GO_REF:0000107 NCBI chr 4:65,273,988...65,295,362
Ensembl chr 4:65,274,003...65,295,600
JBrowse link
G RARA retinoic acid receptor alpha IEA Ensembl GO_REF:0000107 NCBI chr12:22,047,449...22,085,759
Ensembl chr12:22,047,442...22,085,674
JBrowse link
G RELA RELA proto-oncogene, NF-kB subunit IEA Ensembl GO_REF:0000107 NCBI chr 2:6,594,869...6,602,684
Ensembl chr 2:6,593,969...6,603,471
JBrowse link
G RUVBL2 RuvB like AAA ATPase 2 IEA Ensembl GO_REF:0000107 NCBI chr 6:54,250,494...54,263,492
Ensembl chr 6:54,250,515...54,266,893
JBrowse link
G RXRA retinoid X receptor alpha IEA Ensembl GO_REF:0000107 NCBI chr 1:273,698,842...273,797,622
Ensembl chr 1:273,705,503...273,797,622
JBrowse link
G SBNO1 strawberry notch homolog 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:29,559,103...29,622,221
Ensembl chr14:29,570,471...29,620,091
JBrowse link
G SBNO2 strawberry notch homolog 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 2:77,278,059...77,320,371
Ensembl chr 2:77,275,013...77,320,367
JBrowse link
G SMAD3 SMAD family member 3 IEA Ensembl GO_REF:0000107 NCBI chr 1:164,998,457...165,124,455
Ensembl chr 1:164,998,083...165,124,454
JBrowse link
G SOX2 SRY-box transcription factor 2 ISO (MGI:5548017|PMID:24268575) MGI PMID:24268575 MGI:5548017 NCBI chr13:119,668,476...119,669,435 JBrowse link
G SRF serum response factor IEA Ensembl GO_REF:0000107 NCBI chr 7:38,213,300...38,223,686
Ensembl chr 7:38,213,063...38,222,140
JBrowse link
G STAT3 signal transducer and activator of transcription 3 IEA Ensembl GO_REF:0000107 NCBI chr12:20,407,316...20,471,091
Ensembl chr12:20,407,233...20,472,993
JBrowse link
G SUZ12 SUZ12 polycomb repressive complex 2 subunit IEA
IBA
(PMID:21873635) Ensembl
GO_Central
PMID:21873635 GO_REF:0000107 NCBI chr12:42,983,597...43,032,671
Ensembl chr12:42,983,997...43,032,644
JBrowse link
G THRA thyroid hormone receptor alpha IEA Ensembl GO_REF:0000107 NCBI chr12:22,270,506...22,296,684
Ensembl chr12:22,270,062...22,296,618
JBrowse link
G THRB thyroid hormone receptor beta IEA Ensembl GO_REF:0000107 NCBI chr13:10,900,716...11,360,587
Ensembl chr13:10,900,718...11,359,544
JBrowse link
G TOP1 DNA topoisomerase I ISO RGD PMID:1332866 RGD:1580856 NCBI chr17:43,710,270...43,799,700
Ensembl chr17:43,710,290...43,799,700
JBrowse link
G TOX thymocyte selection associated high mobility group box IEA
IBA
(PMID:21873635) Ensembl
GO_Central
PMID:21873635 GO_REF:0000107 NCBI chr 4:73,810,180...74,115,352
Ensembl chr 4:73,810,188...74,134,229
JBrowse link
G TOX2 TOX high mobility group box family member 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr17:46,433,005...46,577,076
Ensembl chr17:46,433,027...46,577,076
JBrowse link
G TOX3 TOX high mobility group box family member 3 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:32,492,686...32,609,923
Ensembl chr 6:32,494,170...32,609,928
JBrowse link
G TOX4 TOX high mobility group box family member 4 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 7:77,679,405...77,698,952
Ensembl chr 7:77,678,475...77,698,917
JBrowse link
G VAX1 ventral anterior homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr14:127,269,723...127,277,007
Ensembl chr14:127,271,566...127,275,738
JBrowse link
G VAX2 ventral anterior homeobox 2 IEA Ensembl GO_REF:0000107 NCBI chr 3:71,593,807...71,622,487
Ensembl chr 3:71,593,807...71,622,444
JBrowse link
G WBP2 WW domain binding protein 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr12:5,565,112...5,573,277
Ensembl chr12:5,565,136...5,574,586
JBrowse link
G XBP1 X-box binding protein 1 ISO (PMID:25280941) UniProtKB PMID:25280941 NCBI chr14:46,011,239...46,016,526
Ensembl chr14:46,008,377...46,017,036
JBrowse link
G ZIC2 Zic family member 2 ISO (MGI:4833763|PMID:20676059) UniProt PMID:20676059 MGI:4833763 NCBI chr11:68,840,802...68,845,441
Ensembl chr11:68,840,830...68,846,470
JBrowse link
chromatin insulator sequence binding term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CTCF CCCTC-binding factor IEA Ensembl GO_REF:0000107 NCBI chr 6:28,188,002...28,261,009
Ensembl chr 6:28,195,668...28,261,009
JBrowse link
G PRDM5 PR/SET domain 5 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 8:103,188,312...103,383,955
Ensembl chr 8:103,097,397...103,382,115
JBrowse link
G REPIN1 replication initiator 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr18:55,925,529...55,930,698
Ensembl chr18:55,924,882...55,932,270
JBrowse link
G ZFX zinc finger protein X-linked IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:20,220,812...20,273,689 JBrowse link
G ZNF276 zinc finger protein 276 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:298,034...316,451
Ensembl chr 6:298,036...313,366
JBrowse link
G ZNF470 zinc finger protein 470 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:60,857,063...60,903,923
Ensembl chr 6:60,857,063...60,927,200
Ensembl chr 6:60,857,063...60,927,200
JBrowse link
G ZNF692 zinc finger protein 692 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 2:52,288,641...52,297,155
Ensembl chr 2:52,284,091...52,297,153
JBrowse link
nucleosomal DNA binding term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G H1-3 H1.3 linker histone, cluster member IBA (PMID:21873635) GO_Central PMID:21873635 Ensembl chr 7:20,862,942...20,882,693 JBrowse link
G H1-4 H1.4 linker histone, cluster member IBA (PMID:21873635) GO_Central PMID:21873635 Ensembl chr 7:20,819,639...20,854,590 JBrowse link
G H1-6 H1.6 linker histone, cluster member IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 7:20,774,135...20,777,244 JBrowse link
G H1FOO oocyte-specific H1 histone ISS
IBA
(PMID:21873635) UniProt
GO_Central
PMID:21873635 GO_REF:0000024 NCBI chr13:68,921,491...68,943,061
Ensembl chr13:68,938,024...68,942,744
JBrowse link
G H2AFY H2A histone family, member Y IEA Ensembl GO_REF:0000107 NCBI chr 2:137,535,128...137,623,886
Ensembl chr 2:137,535,131...137,623,889
JBrowse link
G H2AFZ H2A histone family, member Z IEA Ensembl GO_REF:0000107 NCBI chr 8:120,563,752...120,566,023
Ensembl chr 8:120,563,752...120,566,034
JBrowse link
G H3-3A H3 histone, family 3A IEA Ensembl GO_REF:0000107 NCBI chr10:13,939,938...13,947,976
Ensembl chr10:13,939,594...13,948,000
JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17078040) UniProtKB PMID:17078040 NCBI chr 5:30,188,521...30,329,635 JBrowse link
G HMGN1 high mobility group nucleosome binding domain 1 IEA InterPro GO_REF:0000002 NCBI chr13:202,936,313...202,943,496
Ensembl chr13:202,905,233...202,943,538
JBrowse link
G HMGN2 high mobility group nucleosomal binding domain 2 IEA InterPro GO_REF:0000002 NCBI chr 6:83,857,114...83,861,907
Ensembl chr 6:83,823,255...83,861,907
JBrowse link
G HMGN3 high mobility group nucleosomal binding domain 3 IEA InterPro GO_REF:0000002 NCBI chr 1:86,954,468...86,987,465
Ensembl chr 1:86,953,923...86,987,465
JBrowse link
G HMGN4 high mobility group nucleosomal binding domain 4 IEA InterPro GO_REF:0000002 NCBI chr 7:20,998,913...21,003,138
Ensembl chr 7:20,998,957...21,003,136
JBrowse link
G HMGN5 high mobility group nucleosome binding domain 5 IEA InterPro GO_REF:0000002 NCBI chr  X:64,541,310...64,617,345 JBrowse link
G LOC100510904 histone H1.0 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:10,038,944...10,041,242
Ensembl chr 5:10,038,951...10,041,080
JBrowse link
G LOC100513253 non-histone chromosomal protein HMG-14 pseudogene IEA InterPro GO_REF:0000002 NCBI chr  X:43,481,194...43,481,489 JBrowse link
G LOC100521680 histone H3.3 IEA Ensembl GO_REF:0000107 NCBI chr12:5,632,326...5,634,977
Ensembl chr12:5,632,365...5,634,726
JBrowse link
G RCC1 regulator of chromosome condensation 1 IEA Ensembl GO_REF:0000107 NCBI chr 6:85,540,766...85,565,869
Ensembl chr 6:85,546,024...85,564,877
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  molecular_function 17444
    binding 15329
      chromatin binding 636
        chromatin DNA binding 92
          chromatin insulator sequence binding 7
          nucleosomal DNA binding 17
Path 2
Term Annotations click to browse term
  molecular_function 17444
    binding 15329
      organic cyclic compound binding 4936
        nucleic acid binding 3045
          DNA binding 2019
            chromatin DNA binding 92
              chromatin insulator sequence binding 7
              nucleosomal DNA binding 17
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.