RLG00000004347

Belongs to the histone deacetylase family. HD Type 1 subfamily

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0009070
Physical Location & Seq
Forward (+)
58529543 .. 58532997
3455 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000004347

Sequence Viewer

Length: 1122 bp
ATGCAGAGTTTAGGAGATGATGGACTTGAGCGGAGCTTCACCGCCGTCTGGTGGCGAGTGAGCTACTTCTACGAGCCCACCGTCGGCGACTACTACTACGGCCAAGGCCACCCGATGAAGCCCCACCGCACCCTGAGGCCTCCGACATCAGAAACTTCCACTCCGACGACTACGTCGACTTCCTCGCCTCCGTCTCCCCCGAAACCCTCTCCGACGACGTCCGCGCCCTCCACCTCAAGCCGTGCAACATCGGCGAGGACTGCCCCCTTCTTCGACGGCCTCTTCGGCTTCTGCCAGGCCTCCTCCGGCGGCTCTATTGGCGCCGCCGTCAAGCTGAACCGGAAGGACTGCGATATTGCGATCAGTTGCGCCGGTGGGGTTCACCATGCCAAGAAAGCTGAGGCCTCAGGGTTTTGTTACGTGAACGACATTGTGCTCGGGATTCTTGAGCTGCTCAAGGTTCACAGGCGTGTTCTTTATGTAGACGTTGATGTTCACCACGGAGATGGAGTTGAGGAGGCATTTTACACTACTGACAGGGTAATGACCGATGTTGGCGCAGGGCCTGGGAAAAATTATGCCTTGAATGTCCCACTGAATGATGGCATGGATGATGAGAGTTTTCGCAGTCTGTTTAGGCCCCTCATCCAAAAGTGTGGAGCGGATTCACTATCTGGTGATCGGTTGGGGTGCTTCAACTTATCTGTCAAAGGTCATGCCATTTGTCGCCGCCATCTTCAATCTCTCAATGTTCCTCTGATGGTTTTGGGCGGCGGAGGATATACGATCAGGAATGTTGCTCATTACACTCTTCATGTCGACACATTCAACATGGAGAACCTCAACTCACCCAAAGAAATGGAGAACATAAGTGTCCCCTTCCAGACAACACCGCCAACTACAGCAGTCCCAGAGGAGTCGGTGTGGGCAGAAGAGCGCATGGACCACAGACCAAAGTGTCGTATTTGGGAGGGCGTGGACTATGATTCTGATTCTGATCCTGATGATGATGAGAAGCCTTGGAAGTACTCCAATTCTGCCGGTCTGCTTGGTGTTAAAACTGAGATGAGGCATGATCCTGATGAGATGGAAGAAGACGAAGATCATCCTCAGTGTTGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003824 GO:0004407 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006325 GO:0006464 GO:0006476 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0009507 GO:0009526 GO:0009536 GO:0009553 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009790 GO:0009791 GO:0009793 GO:0009845 GO:0009892 GO:0009941 GO:0009987 GO:0010033 GO:0010154 GO:0010228 GO:0010431 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0016043 GO:0016441 GO:0016458 GO:0016569 GO:0016570 GO:0016575 GO:0016787 GO:0016810 GO:0016811 GO:0019213 GO:0019222 GO:0019538 GO:0021700 GO:0022414 GO:0031967 GO:0031975 GO:0032501 GO:0032502 GO:0032504 GO:0033558 GO:0033993 GO:0035601 GO:0036211 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0048229 GO:0048316 GO:0048519 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050789 GO:0050896 GO:0051276 GO:0060255 GO:0061458 GO:0065007 GO:0071695 GO:0071704 GO:0071840 GO:0090351 GO:0097305 GO:0098732 GO:0140096 GO:1901564 GO:1901700
KEGG Pathways
Metabolic & Signaling
ko04110 ko04213 ko04330 ko04919 ko05016 ko05034 ko05165 ko05169 ko05200 ko05202 ko05203 ko05220 map04110 map04213 map04330 map04919 map05016 map05034 map05165 map05169 map05200 map05202 map05203 map05220
Pfam Domains
Protein Families
Hist_deacetyl

Protein Analysis

374

Amino Acids

41.06

Weight (kDa)

5.22

Isoelectric Point (pI)

46.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hist_deacetyl PF00850 84 - 183 2.7e-30 Histone deacetylase domain
Hist_deacetyl PF00850 183 - 270 3.4e-12 Histone deacetylase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 172, 957
AatII GACGTC 1 cut(s) 221
AccB1I GGYRCC 1 cut(s) 320
AccBSI CCGCTC 2 cut(s) 31, 662
AccI GTMKAC 3 cut(s) 176, 483, 819
AccII CGCG 1 cut(s) 224
AclWI GGATC 2 cut(s) 992, 1070
AcoI YGGCCR 1 cut(s) 100
AcyI GRCGYC 2 cut(s) 218, 321
AfaI GTAC 1 cut(s) 1028
AfiI CCNNNNNNNGG 3 cut(s) 48, 51, 83
AgsI TTSAA 4 cut(s) 586, 697, 740, 829
AjnI CCWGG 2 cut(s) 294, 565
AleI CACNNNNGTG 1 cut(s) 468
AluBI AGCT 5 cut(s) 36, 63, 334, 398, 451
AluI AGCT 5 cut(s) 36, 63, 334, 398, 451
Alw21I GWGCWC 1 cut(s) 438
Alw26I GTCTC 1 cut(s) 198
AlwI GGATC 2 cut(s) 992, 1070
AlwNI CAGNNNCTG 1 cut(s) 566
Ama87I CYCGRG 1 cut(s) 437
AoxI GGCC 8 cut(s) 100, 106, 137, 277, 297, 402, 563, 638
ApeKI GCWGC 1 cut(s) 451
ArsI GACNNNNNNTTYG 2 cut(s) 266, 298
AspLEI GCGC 5 cut(s) 226, 323, 371, 560, 939
AspS9I GGNCC 3 cut(s) 563, 639, 943
AsuHPI GGTGA 5 cut(s) 31, 374, 488, 689, 840
AvaI CYCGRG 1 cut(s) 437
AvaII GGWCC 1 cut(s) 943
AxyI CCTNAGG 2 cut(s) 134, 406
BanI GGYRCC 1 cut(s) 320
BanII GRGCYC 1 cut(s) 78
BbsI GAAGAC 1 cut(s) 1101
Bbv12I GWGCWC 1 cut(s) 438
BbvCI CCTCAGC 1 cut(s) 399
BbvI GCAGC 1 cut(s) 438
BccI CCATC 6 cut(s) 14, 500, 596, 741, 754, 1081
BceAI ACGGC 5 cut(s) 29, 115, 225, 292, 311
BciT130I CCWGG 2 cut(s) 296, 567
BcoDI GTCTC 1 cut(s) 198
BfmI CTRYAG 1 cut(s) 900
BfoI RGCGCY 1 cut(s) 324
BglI GCCNNNNNGGC 1 cut(s) 285
BisI GCNGC 5 cut(s) 310, 324, 452, 730, 772
BlsI GCNGC 5 cut(s) 311, 325, 453, 731, 773
BmcAI AGTACT 1 cut(s) 1028
Bme1390I CCNGG 2 cut(s) 296, 567
Bme18I GGWCC 1 cut(s) 943
BmeT110I CYCGRG 1 cut(s) 437
BmgT120I GGNCC 3 cut(s) 563, 639, 943
BmiI GGNNCC 2 cut(s) 322, 641
BmrFI CCNGG 2 cut(s) 296, 567
BpiI GAAGAC 1 cut(s) 1101
Bpu10I CCTNAGC 1 cut(s) 399
BpuEI CTTGAG 4 cut(s) 47, 220, 440, 467
BsaAI YACGTR 1 cut(s) 421
BsaBI GATNNNNATC 1 cut(s) 996
BsaHI GRCGYC 2 cut(s) 218, 321
BsaJI CCNNGG 4 cut(s) 103, 499, 566, 1019
BsaWI WCCGGW 1 cut(s) 339
BsaXI ACNNNNNCTCC 6 cut(s) 145, 175, 495, 525, 908, 938
Bsc4I CCNNNNNNNGG 3 cut(s) 48, 51, 83
Bse118I RCCGGY 2 cut(s) 371, 1040
Bse21I CCTNAGG 2 cut(s) 134, 406
Bse8I GATNNNNATC 1 cut(s) 996
BseBI CCWGG 2 cut(s) 296, 567
BseDI CCNNGG 4 cut(s) 103, 499, 566, 1019
BseGI GGATG 3 cut(s) 616, 645, 1105
BseJI GATNNNNATC 1 cut(s) 996
BseLI CCNNNNNNNGG 3 cut(s) 48, 51, 83
BseMII CTCAG 4 cut(s) 125, 390, 420, 1053
BseRI GAGGAG 3 cut(s) 292, 530, 929
BseXI GCAGC 1 cut(s) 438
Bsh1236I CGCG 1 cut(s) 224
BshFI GGCC 8 cut(s) 102, 108, 139, 279, 299, 404, 565, 640
BshNI GGYRCC 1 cut(s) 320
BsiHKAI GWGCWC 1 cut(s) 438
BsiHKCI CYCGRG 1 cut(s) 437
BsiSI CCGG 4 cut(s) 306, 340, 372, 1041
BslFI GGGAC 3 cut(s) 575, 860, 893
BslI CCNNNNNNNGG 3 cut(s) 48, 51, 83
BsmAI GTCTC 1 cut(s) 198
BsmBI CGTCTC 1 cut(s) 198
BsmFI GGGAC 3 cut(s) 575, 860, 893
BsnI GGCC 8 cut(s) 102, 108, 139, 279, 299, 404, 565, 640
BsoBI CYCGRG 1 cut(s) 437
Bsp1286I GDGCHC 2 cut(s) 78, 438
Bsp143I GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
BspANI GGCC 8 cut(s) 102, 108, 139, 279, 299, 404, 565, 640
BspCNI CTCAG 4 cut(s) 126, 391, 419, 1054
BspFNI CGCG 1 cut(s) 224
BspLI GGNNCC 2 cut(s) 322, 641
BspPI GGATC 2 cut(s) 992, 1070
BspQI GCTCTTC 1 cut(s) 927
BspT107I GGYRCC 1 cut(s) 320
BsrBI CCGCTC 2 cut(s) 31, 662
BsrFI RCCGGY 2 cut(s) 371, 1040
BssAI RCCGGY 2 cut(s) 371, 1040
BssECI CCNNGG 4 cut(s) 103, 499, 566, 1019
BssMI GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
BssNI GRCGYC 2 cut(s) 218, 321
BssT1I CCWWGG 2 cut(s) 103, 1019
Bst2UI CCWGG 2 cut(s) 296, 567
Bst4CI ACNGT 1 cut(s) 82
Bst6I CTCTTC 3 cut(s) 287, 816, 927
BstACI GRCGYC 2 cut(s) 218, 321
BstBAI YACGTR 1 cut(s) 421
BstDEI CTNAG 5 cut(s) 134, 399, 406, 1062, 1110
BstDSI CCRYGG 1 cut(s) 499
BstF5I GGATG 3 cut(s) 616, 645, 1105
BstFNI CGCG 1 cut(s) 224
BstH2I RGCGCY 1 cut(s) 324
BstHHI GCGC 5 cut(s) 226, 323, 371, 560, 939
BstKTI GATC 6 cut(s) 363, 682, 789, 1000, 1078, 1105
BstMAI GTCTC 1 cut(s) 198
BstMBI GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
BstMWI GCNNNNNNNGC 5 cut(s) 251, 260, 285, 318, 395
BstNI CCWGG 2 cut(s) 296, 567
BstSCI CCNGG 2 cut(s) 294, 565
BstSFI CTRYAG 1 cut(s) 900
BstUI CGCG 1 cut(s) 224
BstV1I GCAGC 1 cut(s) 438
BstV2I GAAGAC 1 cut(s) 1101
BstXI CCANNNNNNTGG 3 cut(s) 506, 656, 859
Bsu36I CCTNAGG 2 cut(s) 134, 406
BsuRI GGCC 8 cut(s) 102, 108, 139, 279, 299, 404, 565, 640
BtgI CCRYGG 1 cut(s) 499
BtsCI GGATG 3 cut(s) 616, 645, 1105
BtsIMutI CAGTG 2 cut(s) 593, 1118
CaiI CAGNNNCTG 1 cut(s) 566
CfoI GCGC 5 cut(s) 226, 323, 371, 560, 939
Cfr10I RCCGGY 2 cut(s) 371, 1040
Cfr13I GGNCC 3 cut(s) 563, 639, 943
Csp6I GTAC 1 cut(s) 1027
CviAII CATG 7 cut(s) 386, 607, 716, 815, 832, 940, 1073
CviQI GTAC 1 cut(s) 1027
DdeI CTNAG 5 cut(s) 134, 399, 406, 1062, 1110
DinI GGCGCC 1 cut(s) 322
DpnI GATC 6 cut(s) 362, 681, 788, 999, 1077, 1104
DpnII GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
DrdI GACNNNNNNGTC 2 cut(s) 172, 957
DseDI GACNNNNNNGTC 2 cut(s) 172, 957
EaeI YGGCCR 1 cut(s) 100
Eam1104I CTCTTC 3 cut(s) 287, 816, 927
EarI CTCTTC 3 cut(s) 287, 816, 927
EciI GGCGGA 1 cut(s) 789
Eco130I CCWWGG 2 cut(s) 103, 1019
Eco147I AGGCCT 3 cut(s) 139, 299, 404
Eco24I GRGCYC 1 cut(s) 78
Eco47I GGWCC 1 cut(s) 943
Eco81I CCTNAGG 2 cut(s) 134, 406
Eco88I CYCGRG 1 cut(s) 437
EcoO109I RGGNCCY 2 cut(s) 563, 639
EcoRII CCWGG 2 cut(s) 294, 565
EcoT14I CCWWGG 2 cut(s) 103, 1019
EcoT38I GRGCYC 1 cut(s) 78
EgeI GGCGCC 1 cut(s) 322
EheI GGCGCC 1 cut(s) 322
ErhI CCWWGG 2 cut(s) 103, 1019
Esp3I CGTCTC 1 cut(s) 198
FaeI CATG 7 cut(s) 389, 610, 719, 818, 835, 943, 1076
FaqI GGGAC 3 cut(s) 575, 860, 893
FatI CATG 7 cut(s) 385, 606, 715, 814, 831, 939, 1072
FblI GTMKAC 3 cut(s) 176, 483, 819
Fnu4HI GCNGC 5 cut(s) 310, 324, 452, 730, 772
FokI GGATG 3 cut(s) 623, 632, 1092
FriOI GRGCYC 1 cut(s) 78
Fsp4HI GCNGC 5 cut(s) 310, 324, 452, 730, 772
GlaI GCGC 5 cut(s) 225, 322, 370, 559, 938
GluI GCNGC 5 cut(s) 310, 324, 452, 730, 772
HaeII RGCGCY 1 cut(s) 324
HaeIII GGCC 8 cut(s) 102, 108, 139, 279, 299, 404, 565, 640
HapII CCGG 4 cut(s) 306, 340, 372, 1041
HhaI GCGC 5 cut(s) 226, 323, 371, 560, 939
Hin1I GRCGYC 2 cut(s) 218, 321
Hin1II CATG 7 cut(s) 389, 610, 719, 818, 835, 943, 1076
Hin6I GCGC 5 cut(s) 224, 321, 369, 558, 937
HinP1I GCGC 5 cut(s) 224, 321, 369, 558, 937
HincII GTYRAC 2 cut(s) 177, 820
HindII GTYRAC 2 cut(s) 177, 820
HinfI GANTC 5 cut(s) 442, 665, 917, 986, 992
HpaII CCGG 4 cut(s) 306, 340, 372, 1041
HphI GGTGA 5 cut(s) 31, 374, 488, 689, 840
Hpy166II GTNNAC 8 cut(s) 177, 382, 424, 463, 484, 496, 820, 979
Hpy188I TCNGA 7 cut(s) 144, 151, 165, 213, 759, 991, 997
Hpy188III TCNNGA 6 cut(s) 439, 446, 790, 883, 1001, 1079
Hpy8I GTNNAC 8 cut(s) 177, 382, 424, 463, 484, 496, 820, 979
Hpy99I CGWCG 6 cut(s) 86, 169, 178, 217, 220, 278
HpyAV CCTTC 3 cut(s) 277, 337, 889
HpyCH4III ACNGT 1 cut(s) 82
HpyCH4IV ACGT 4 cut(s) 173, 218, 420, 486
HpyCH4V TGCA 2 cut(s) 4, 245
HpyF10VI GCNNNNNNNGC 5 cut(s) 251, 260, 285, 318, 395
HpyF3I CTNAG 5 cut(s) 134, 399, 406, 1062, 1110
HpySE526I ACGT 4 cut(s) 173, 218, 420, 486
Hsp92I GRCGYC 2 cut(s) 218, 321
Hsp92II CATG 7 cut(s) 389, 610, 719, 818, 835, 943, 1076
HspAI GCGC 5 cut(s) 224, 321, 369, 558, 937
KasI GGCGCC 1 cut(s) 320
Kzo9I GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
LguI GCTCTTC 1 cut(s) 927
LmnI GCTCC 2 cut(s) 33, 659
Lsp1109I GCAGC 1 cut(s) 438
MaeII ACGT 4 cut(s) 173, 218, 420, 486
MaeIII GTNAC 1 cut(s) 416
MalI GATC 6 cut(s) 362, 681, 788, 999, 1077, 1104
MbiI CCGCTC 2 cut(s) 31, 662
MboI GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
MboII GAAGA 8 cut(s) 262, 274, 728, 803, 944, 1103, 1106, 1112
MhlI GDGCHC 2 cut(s) 78, 438
MluCI AATT 2 cut(s) 574, 1033
Mly113I GGCGCC 1 cut(s) 321
MlyI GAGTC 1 cut(s) 926
MmeI TCCRAC 3 cut(s) 167, 188, 236
MseI TTAA 1 cut(s) 1056
MslI CAYNNNNRTG 2 cut(s) 468, 504
MspI CCGG 4 cut(s) 306, 340, 372, 1041
MspR9I CCNGG 2 cut(s) 296, 567
MvaI CCWGG 2 cut(s) 296, 567
MvnI CGCG 1 cut(s) 224
MwoI GCNNNNNNNGC 5 cut(s) 251, 260, 285, 318, 395
NarI GGCGCC 1 cut(s) 321
NdeII GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
NlaIII CATG 7 cut(s) 389, 610, 719, 818, 835, 943, 1076
NlaIV GGNNCC 2 cut(s) 322, 641
OliI CACNNNNGTG 1 cut(s) 468
PceI AGGCCT 3 cut(s) 139, 299, 404
PciSI GCTCTTC 1 cut(s) 927
PcsI WCGNNNNNNNCGW 2 cut(s) 78, 173
PfeI GAWTC 4 cut(s) 442, 665, 986, 992
PflFI GACNNNGTC 2 cut(s) 172, 217
PkrI GCNGC 5 cut(s) 311, 325, 453, 731, 773
PleI GAGTC 1 cut(s) 925
PluTI GGCGCC 1 cut(s) 324
PpsI GAGTC 1 cut(s) 925
Ppu21I YACGTR 1 cut(s) 421
Psp6I CCWGG 2 cut(s) 294, 565
PspGI CCWGG 2 cut(s) 294, 565
PspN4I GGNNCC 2 cut(s) 322, 641
PspPI GGNCC 3 cut(s) 563, 639, 943
PstNI CAGNNNCTG 1 cut(s) 566
PsyI GACNNNGTC 2 cut(s) 172, 217
RsaI GTAC 1 cut(s) 1028
RsaNI GTAC 1 cut(s) 1027
RseI CAYNNNNRTG 2 cut(s) 468, 504
SalI GTCGAC 2 cut(s) 175, 818
SapI GCTCTTC 1 cut(s) 927
SaqAI TTAA 1 cut(s) 1056
SatI GCNGC 5 cut(s) 310, 324, 452, 730, 772
Sau3AI GATC 6 cut(s) 360, 679, 786, 997, 1075, 1102
Sau96I GGNCC 3 cut(s) 563, 639, 943
ScaI AGTACT 1 cut(s) 1028
SchI GAGTC 1 cut(s) 926
ScrFI CCNGG 2 cut(s) 296, 567
SduI GDGCHC 2 cut(s) 78, 438
SfcI CTRYAG 1 cut(s) 900
SfoI GGCGCC 1 cut(s) 322
SgrAI CRCCGGYG 1 cut(s) 371
SinI GGWCC 1 cut(s) 943
SmiMI CAYNNNNRTG 2 cut(s) 468, 504
SmlI CTYRAG 4 cut(s) 26, 235, 446, 455
SmoI CTYRAG 4 cut(s) 26, 235, 446, 455
Sse9I AATT 2 cut(s) 574, 1033
SseBI AGGCCT 3 cut(s) 139, 299, 404
SspDI GGCGCC 1 cut(s) 320
StuI AGGCCT 3 cut(s) 139, 299, 404
StyD4I CCNGG 2 cut(s) 294, 565
StyI CCWWGG 2 cut(s) 103, 1019
TaaI ACNGT 1 cut(s) 82
TaiI ACGT 4 cut(s) 176, 221, 423, 489
TaqI TCGA 3 cut(s) 176, 273, 819
TaqII GACCGA 1 cut(s) 563
TasI AATT 2 cut(s) 574, 1033
TatI WGTACW 1 cut(s) 1026
TauI GCSGC 4 cut(s) 312, 326, 732, 774
TfiI GAWTC 4 cut(s) 442, 665, 986, 992
Tru1I TTAA 1 cut(s) 1056
Tru9I TTAA 1 cut(s) 1056
TscAI CASTG 2 cut(s) 600, 1118
TseI GCWGC 1 cut(s) 451
TspDTI ATGAA 2 cut(s) 131, 803
TspGWI ACGGA 2 cut(s) 180, 516
TspRI CASTG 2 cut(s) 600, 1118
Tth111I GACNNNGTC 2 cut(s) 172, 217
VpaK11BI GGWCC 1 cut(s) 943
XmiI GTMKAC 3 cut(s) 176, 483, 819
ZraI GACGTC 1 cut(s) 219
ZrmI AGTACT 1 cut(s) 1028
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.