RchiOBHm_Chr3g0484871

Belongs to the histone deacetylase family. HD Type 1 subfamily

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0009070
Physical Location & Seq
Forward (+)
31354533 .. 31355426
894 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44956

Sequence Viewer

Length: 894 bp
ATGTCCTTGTATTTTCACAAGCTCAATCTCAGACATGCTGATATCGCCATCAATTGGGCCGGTGGGCTTCACCATGCAAAGATGGCCGCAGCCTCGATGTTCTGTTATGTCAACGACATTGTACTAGGAATTCTTGAGATCCTCAAGGTTCATAGATGTGTTCTTTATATCGATATTGATGTGCACCATGGAGATGGAGTTGAGAAAGCATTTTACTCCACTGATAGGGTCATGACAGTGTCTTTCCATAGATTTGGTGATTTCTTTCCGGGGACCGGGCAACTTGAAGACATTGGAGTGGGACTTGGGGAGAATTATTCTTTGAATGTACCCCTGAACGATGGAATAGATGATGAGGATTTTCGTTGGTTATTTCGTCCCGTAATCAGAAAAGTGATGGAGATGTATGAACCGGAGGCTGTTGTTCTTCAGTCTGGGGCAGATTCGCTAACCGGGGACAGGTTAGGGTGCTTCAACTTGTCTATCAAAGGCCATGCGGATTGTCTTCGTTTCCTTAGATCGTTTAATGTCCCTTTGATGGTCTTGGGCGGGGCAGGTTATACGATTCAGAATGTTGTTCGTTGCTGGTGTTATGAGACGGCAGTAGCAATTAGAGAGGAACTTGATGATCAGTTGCCTGACAACGACTACCATGATTATTTTGGTCCAAATTACACTCTTCATATTGACACATGTGACATGAAGAACCTGAACAAACCTGAAAAGTTGGTGGAGATGAGGAATAAGCTGCTAGACCAGATTTGCAGATTACCTCATGCACCCAGCGTTCCATTTCTGACAACACCATCAATTACACAAGTTCCGGCGCGGAGGAGGCGGAAGACAATATGGATGAAAGATCAAAGTGGTTTTAGATTAGAAAAACAAAATTAA
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

297

Amino Acids

33.96

Weight (kDa)

6.05

Isoelectric Point (pI)

44.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hist_deacetyl PF00850 12 - 201 9.2e-61 Histone deacetylase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 545
AccB7I CCANNNNNTGG 1 cut(s) 54
AccII CGCG 1 cut(s) 829
AciI CCGC 5 cut(s) 87, 497, 549, 829, 838
AclWI GGATC 1 cut(s) 133
AcoI YGGCCR 1 cut(s) 84
AcsI RAATTY 1 cut(s) 129
AcuI CTGAAG 1 cut(s) 413
AfaI GTAC 2 cut(s) 123, 330
AfiI CCNNNNNNNGG 5 cut(s) 54, 225, 275, 459, 538
AflIII ACRYGT 1 cut(s) 692
AgsI TTSAA 3 cut(s) 287, 325, 475
AluBI AGCT 2 cut(s) 22, 748
AluI AGCT 2 cut(s) 22, 748
Alw21I GWGCWC 1 cut(s) 186
Alw26I GTCTC 1 cut(s) 590
Alw44I GTGCAC 1 cut(s) 182
AlwI GGATC 1 cut(s) 133
AoxI GGCC 3 cut(s) 57, 84, 490
ApaLI GTGCAC 1 cut(s) 182
ApeKI GCWGC 2 cut(s) 89, 748
ApoI RAATTY 1 cut(s) 129
AspLEI GCGC 1 cut(s) 829
AspS9I GGNCC 3 cut(s) 57, 273, 665
AsuC2I CCSGG 3 cut(s) 270, 277, 454
AsuHPI GGTGA 2 cut(s) 62, 269
AvaII GGWCC 2 cut(s) 273, 665
BaeGI GKGCMC 1 cut(s) 186
BbsI GAAGAC 3 cut(s) 294, 497, 848
Bbv12I GWGCWC 1 cut(s) 186
BbvI GCAGC 2 cut(s) 101, 735
BccI CCATC 7 cut(s) 56, 76, 188, 335, 391, 532, 814
BceAI ACGGC 1 cut(s) 615
BclI TGATCA 1 cut(s) 628
BcnI CCSGG 3 cut(s) 270, 277, 454
BcoDI GTCTC 1 cut(s) 590
BfaI CTAG 2 cut(s) 125, 752
BfuAI ACCTGC 1 cut(s) 545
BisI GCNGC 3 cut(s) 87, 90, 749
BlsI GCNGC 3 cut(s) 88, 91, 750
Bme1390I CCNGG 3 cut(s) 270, 277, 454
Bme18I GGWCC 2 cut(s) 273, 665
BmgT120I GGNCC 3 cut(s) 57, 273, 665
BmiI GGNNCC 1 cut(s) 274
BmrFI CCNGG 3 cut(s) 270, 277, 454
BpiI GAAGAC 3 cut(s) 294, 497, 848
BpuEI CTTGAG 2 cut(s) 128, 155
BpuMI CCSGG 3 cut(s) 270, 277, 454
Bsa29I ATCGAT 1 cut(s) 171
BsaJI CCNNGG 3 cut(s) 187, 269, 453
BsaWI WCCGGW 1 cut(s) 412
BsaXI ACNNNNNCTCC 2 cut(s) 183, 213
Bsc4I CCNNNNNNNGG 5 cut(s) 54, 225, 275, 459, 538
Bse118I RCCGGY 1 cut(s) 59
BseCI ATCGAT 1 cut(s) 171
BseDI CCNNGG 3 cut(s) 187, 269, 453
BseGI GGATG 1 cut(s) 858
BseLI CCNNNNNNNGG 5 cut(s) 54, 225, 275, 459, 538
BseMII CTCAG 1 cut(s) 43
BseRI GAGGAG 1 cut(s) 847
BseSI GKGCMC 1 cut(s) 186
BseXI GCAGC 2 cut(s) 101, 735
BseYI CCCAGC 1 cut(s) 782
Bsh1236I CGCG 1 cut(s) 829
BshFI GGCC 3 cut(s) 59, 86, 492
BshVI ATCGAT 1 cut(s) 171
BsiHKAI GWGCWC 1 cut(s) 186
BsiSI CCGG 6 cut(s) 60, 269, 276, 413, 453, 824
BslFI GGGAC 5 cut(s) 286, 315, 363, 470, 515
BslI CCNNNNNNNGG 5 cut(s) 54, 225, 275, 459, 538
BsmAI GTCTC 1 cut(s) 590
BsmBI CGTCTC 1 cut(s) 590
BsmFI GGGAC 5 cut(s) 286, 315, 363, 470, 515
BsnI GGCC 3 cut(s) 59, 86, 492
Bsp1286I GDGCHC 1 cut(s) 186
Bsp143I GATC 4 cut(s) 138, 518, 628, 859
Bsp19I CCATGG 1 cut(s) 187
BspACI CCGC 5 cut(s) 87, 497, 549, 829, 838
BspANI GGCC 3 cut(s) 59, 86, 492
BspCNI CTCAG 1 cut(s) 42
BspDI ATCGAT 1 cut(s) 171
BspFNI CGCG 1 cut(s) 829
BspHI TCATGA 1 cut(s) 231
BspLI GGNNCC 1 cut(s) 274
BspMI ACCTGC 1 cut(s) 545
BspPI GGATC 1 cut(s) 133
BsrFI RCCGGY 1 cut(s) 59
BssAI RCCGGY 1 cut(s) 59
BssECI CCNNGG 3 cut(s) 187, 269, 453
BssMI GATC 4 cut(s) 138, 518, 628, 859
BssT1I CCWWGG 1 cut(s) 187
Bst4CI ACNGT 1 cut(s) 238
Bst6I CTCTTC 1 cut(s) 684
BstDEI CTNAG 2 cut(s) 29, 515
BstDSI CCRYGG 1 cut(s) 187
BstF5I GGATG 1 cut(s) 858
BstFNI CGCG 1 cut(s) 829
BstHHI GCGC 1 cut(s) 829
BstKTI GATC 4 cut(s) 141, 521, 631, 862
BstMAI GTCTC 1 cut(s) 590
BstMBI GATC 4 cut(s) 138, 518, 628, 859
BstMWI GCNNNNNNNGC 3 cut(s) 44, 83, 835
BstNSI RCATGY 2 cut(s) 38, 696
BstSCI CCNGG 3 cut(s) 268, 275, 452
BstSLI GKGCMC 1 cut(s) 186
BstUI CGCG 1 cut(s) 829
BstV1I GCAGC 2 cut(s) 101, 735
BstV2I GAAGAC 3 cut(s) 294, 497, 848
BstX2I RGATCY 1 cut(s) 138
BstXI CCANNNNNNTGG 2 cut(s) 194, 254
BstYI RGATCY 1 cut(s) 138
Bsu15I ATCGAT 1 cut(s) 171
BsuRI GGCC 3 cut(s) 59, 86, 492
BsuTUI ATCGAT 1 cut(s) 171
BtgI CCRYGG 1 cut(s) 187
BtsCI GGATG 1 cut(s) 858
BtsIMutI CAGTG 2 cut(s) 219, 243
BveI ACCTGC 1 cut(s) 545
CciI TCATGA 1 cut(s) 231
CfoI GCGC 1 cut(s) 829
Cfr10I RCCGGY 1 cut(s) 59
Cfr13I GGNCC 3 cut(s) 57, 273, 665
ClaI ATCGAT 1 cut(s) 171
Csp6I GTAC 2 cut(s) 122, 329
CviAII CATG 9 cut(s) 35, 74, 188, 232, 494, 653, 693, 700, 776
CviJI RGCY 8 cut(s) 22, 59, 67, 86, 92, 419, 492, 748
CviKI_1 RGCY 8 cut(s) 22, 59, 67, 86, 92, 419, 492, 748
CviQI GTAC 2 cut(s) 122, 329
DdeI CTNAG 2 cut(s) 29, 515
DpnI GATC 4 cut(s) 140, 520, 630, 861
DpnII GATC 4 cut(s) 138, 518, 628, 859
EaeI YGGCCR 1 cut(s) 84
Eam1104I CTCTTC 1 cut(s) 684
EarI CTCTTC 1 cut(s) 684
EciI GGCGGA 1 cut(s) 853
Eco130I CCWWGG 1 cut(s) 187
Eco32I GATATC 1 cut(s) 43
Eco47I GGWCC 2 cut(s) 273, 665
Eco57I CTGAAG 1 cut(s) 413
EcoRI GAATTC 1 cut(s) 129
EcoRV GATATC 1 cut(s) 43
EcoT14I CCWWGG 1 cut(s) 187
ErhI CCWWGG 1 cut(s) 187
Esp3I CGTCTC 1 cut(s) 590
FaeI CATG 9 cut(s) 38, 77, 191, 235, 497, 656, 696, 703, 779
FaqI GGGAC 5 cut(s) 286, 315, 363, 470, 515
FatI CATG 9 cut(s) 34, 73, 187, 231, 493, 652, 692, 699, 775
FauI CCCGC 1 cut(s) 542
FbaI TGATCA 1 cut(s) 628
Fnu4HI GCNGC 3 cut(s) 87, 90, 749
FokI GGATG 1 cut(s) 865
Fsp4HI GCNGC 3 cut(s) 87, 90, 749
FspBI CTAG 2 cut(s) 125, 752
GlaI GCGC 1 cut(s) 828
GluI GCNGC 3 cut(s) 87, 90, 749
GsaI CCCAGC 1 cut(s) 786
HaeIII GGCC 3 cut(s) 59, 86, 492
HapII CCGG 6 cut(s) 60, 269, 276, 413, 453, 824
HhaI GCGC 1 cut(s) 829
Hin1II CATG 9 cut(s) 38, 77, 191, 235, 497, 656, 696, 703, 779
Hin6I GCGC 1 cut(s) 827
HinP1I GCGC 1 cut(s) 827
HincII GTYRAC 1 cut(s) 112
HindII GTYRAC 1 cut(s) 112
HinfI GANTC 2 cut(s) 443, 565
HpaII CCGG 6 cut(s) 60, 269, 276, 413, 453, 824
HphI GGTGA 2 cut(s) 62, 269
Hpy166II GTNNAC 2 cut(s) 112, 184
Hpy188I TCNGA 4 cut(s) 32, 389, 570, 798
Hpy188III TCNNGA 2 cut(s) 134, 232
Hpy8I GTNNAC 2 cut(s) 112, 184
HpyCH4III ACNGT 1 cut(s) 238
HpyCH4V TGCA 4 cut(s) 77, 184, 765, 779
HpyF10VI GCNNNNNNNGC 3 cut(s) 44, 83, 835
HpyF3I CTNAG 2 cut(s) 29, 515
Hsp92II CATG 9 cut(s) 38, 77, 191, 235, 497, 656, 696, 703, 779
HspAI GCGC 1 cut(s) 827
Ksp22I TGATCA 1 cut(s) 628
Kzo9I GATC 4 cut(s) 138, 518, 628, 859
Lsp1109I GCAGC 2 cut(s) 101, 735
MaeI CTAG 2 cut(s) 125, 752
MaeIII GTNAC 1 cut(s) 695
MalI GATC 4 cut(s) 140, 520, 630, 861
MboI GATC 4 cut(s) 138, 518, 628, 859
MboII GAAGA 6 cut(s) 299, 419, 497, 671, 715, 853
MfeI CAATTG 1 cut(s) 52
MflI RGATCY 1 cut(s) 138
MhlI GDGCHC 1 cut(s) 186
MluCI AATT 7 cut(s) 52, 129, 313, 609, 670, 810, 889
MnlI CCTC 9 cut(s) 103, 152, 349, 409, 610, 732, 783, 825, 828
MseI TTAA 2 cut(s) 525, 892
MslI CAYNNNNRTG 4 cut(s) 156, 192, 236, 296
MspI CCGG 6 cut(s) 60, 269, 276, 413, 453, 824
MspR9I CCNGG 3 cut(s) 270, 277, 454
MunI CAATTG 1 cut(s) 52
MvnI CGCG 1 cut(s) 829
MwoI GCNNNNNNNGC 3 cut(s) 44, 83, 835
NciI CCSGG 3 cut(s) 270, 277, 454
NcoI CCATGG 1 cut(s) 187
NdeII GATC 4 cut(s) 138, 518, 628, 859
NlaIII CATG 9 cut(s) 38, 77, 191, 235, 497, 656, 696, 703, 779
NlaIV GGNNCC 1 cut(s) 274
NmuCI GTSAC 1 cut(s) 695
NspI RCATGY 2 cut(s) 38, 696
PagI TCATGA 1 cut(s) 231
PciI ACATGT 1 cut(s) 692
PfeI GAWTC 2 cut(s) 443, 565
PflFI GACNNNGTC 1 cut(s) 238
PflMI CCANNNNNTGG 1 cut(s) 54
PkrI GCNGC 3 cut(s) 88, 91, 750
PscI ACATGT 1 cut(s) 692
PspFI CCCAGC 1 cut(s) 782
PspN4I GGNNCC 1 cut(s) 274
PspPI GGNCC 3 cut(s) 57, 273, 665
PsuI RGATCY 1 cut(s) 138
PsyI GACNNNGTC 1 cut(s) 238
RsaI GTAC 2 cut(s) 123, 330
RsaNI GTAC 2 cut(s) 122, 329
RseI CAYNNNNRTG 4 cut(s) 156, 192, 236, 296
SaqAI TTAA 2 cut(s) 525, 892
SatI GCNGC 3 cut(s) 87, 90, 749
Sau3AI GATC 4 cut(s) 138, 518, 628, 859
Sau96I GGNCC 3 cut(s) 57, 273, 665
ScrFI CCNGG 3 cut(s) 270, 277, 454
SduI GDGCHC 1 cut(s) 186
SetI ASST 8 cut(s) 24, 150, 464, 559, 711, 721, 750, 775
SinI GGWCC 2 cut(s) 273, 665
SmiMI CAYNNNNRTG 4 cut(s) 156, 192, 236, 296
SmlI CTYRAG 2 cut(s) 134, 143
SmoI CTYRAG 2 cut(s) 134, 143
Sse9I AATT 7 cut(s) 52, 129, 313, 609, 670, 810, 889
SsiI CCGC 5 cut(s) 87, 497, 549, 829, 838
SspMI CTAG 2 cut(s) 125, 752
StyD4I CCNGG 3 cut(s) 268, 275, 452
StyI CCWWGG 1 cut(s) 187
TaaI ACNGT 1 cut(s) 238
TaqI TCGA 2 cut(s) 95, 171
TasI AATT 7 cut(s) 52, 129, 313, 609, 670, 810, 889
TatI WGTACW 1 cut(s) 121
TauI GCSGC 1 cut(s) 89
TfiI GAWTC 2 cut(s) 443, 565
Tru1I TTAA 2 cut(s) 525, 892
Tru9I TTAA 2 cut(s) 525, 892
TscAI CASTG 2 cut(s) 226, 243
TseFI GTSAC 1 cut(s) 695
TseI GCWGC 2 cut(s) 89, 748
Tsp45I GTSAC 1 cut(s) 695
TspDTI ATGAA 5 cut(s) 140, 423, 671, 716, 869
TspRI CASTG 2 cut(s) 226, 243
Tth111I GACNNNGTC 1 cut(s) 238
Van91I CCANNNNNTGG 1 cut(s) 54
VneI GTGCAC 1 cut(s) 182
VpaK11BI GGWCC 2 cut(s) 273, 665
XapI RAATTY 1 cut(s) 129
XceI RCATGY 2 cut(s) 38, 696
XcmI CCANNNNNNNNNTGG 1 cut(s) 659
XspI CTAG 2 cut(s) 125, 752
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.