RchiOBHm_Chr6g0253291

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000538
Physical Location & Seq
Reverse (-)
8409654 .. 8411502
1849 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ22712

Sequence Viewer

Length: 1020 bp
ATGATGGTCCAGAGCCAGACACAATGCGCTCACCACCAGGCTTTCGTTTCCTGTGATCTCACTGGCGTTCCCAGCCCTGACACTCCCTGCAAAAGATGTCAGCATCCAAAAGAGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTAGTAGTAGTGTGTATGGACATTTCATTCAGCATTATCAGGAGACAAAGCATTGTCTTTCCGTCAACTGCAGTAACAATTTAATTTACTGTTACTCCTGCCGTAAATTTCTAGATGCGGAAGTGATCCAAAAATTATGGGCCAAGGGTCGATCATCTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGATCTCTTGTCTAAGCCAATTCCTAGTATCAATGTTCATCCACAGTTGGATGTTCAGTCGTTTGGAGGCCAGGATGAGCTTGCATTGGCTAAGGAGGGACTACGGAAGATCTTTGATTGCGGGTTAAAGGCTCTAGCTGATCCCAAAGTGCAAGAGGAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCTGAGTCATGCCCCTCAGAATTGAAGGTTAACCTTTCATCATTCAGGTGCAATCTTTCCGAGGAAACGTCTGCTTTCGTCAAAGCTCAAGATGAGTTGAAGGTGGCCTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTGGTGCTGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTCGCCTCGGACGAGAAAGTTGCCGGCTTCAAGGCCATGATCAAAGAGTTGGAAGAACAGATCAAAAGGTTGGAAGCTTGTTTAGCCACAGAAGAGAGCAACAGGGTAAAGATTGATGAGGCTATCGGTTCCATCGAGAAACAAGTCACCACCGCGAGAGATGGATTGGTCTCGGACTTGGCACAAGCGTCTTCCATGGAAGGATCGACCCAAGCAGCTAACAAATTAGTAGCTCGAAAACAGTCGGACTGGGATAATCTAAAGCTGAGTTTTACTAAGTTTGCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
zf-UBP

Protein Analysis

339

Amino Acids

37.66

Weight (kDa)

5.88

Isoelectric Point (pI)

42.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 30 - 88 2.9e-15 Zn-finger in ubiquitin-hydrolases and other protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0000538)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04050 FvH4_2g04050 FvH4_2g04050 FvH4_2g04050 FvH4_2g04050
rosa_chinensis RchiOBHm_Chr6g0253231 RchiOBHm_Chr6g0253251 RchiOBHm_Chr6g0253261 RchiOBHm_Chr6g0253271 RchiOBHm_Chr6g0253291 RchiOBHm_Chr6g0253321 RchiOBHm_Chr6g0253331 RchiOBHm_Chr6g0253341 RchiOBHm_Chr6g0253371 RchiOBHm_Chr6g0253401
rosa_laevigata RLG00000015022 RLG00000015023 RLG00000015024 RLG00000015027 RLG00000015028 RLG00000015030 RLG00000015031 RLG00000015034 RLG00000015035 RLG00000015038 RLG00000015041
rosa_multiflora Rmu_sc0001257.1_g000004 Rmu_sc0001257.1_g000008 Rmu_sc0001257.1_g000014 Rmu_sc0001257.1_g000016 Rmu_sc0001257.1_g000019 Rmu_sc0001257.1_g000026 Rmu_sc0002560.1_g000013 Rmu_sc0002560.1_g000020 Rmu_sc0002560.1_g000021 Rmu_sc0003855.1_g000005 Rmu_sc0003855.1_g000011 Rmu_sc0003898.1_g000003 Rmu_sc0003898.1_g000005 Rmu_sc0003898.1_g000016 Rmu_sc0003898.1_g000017 Rmu_sc0005439.1_g000007 Rmu_sc0005439.1_g000014 Rmu_sc0005439.1_g000021
rosa_roxburghii Rroxscaffold_7G00211930 Rroxscaffold_7G00211940 Rroxscaffold_7G00211960 Rroxscaffold_7G00211980 Rroxscaffold_7G00211990 Rroxscaffold_7G00212000 Rroxscaffold_7G00212050 Rroxscaffold_7G00212060 Rroxscaffold_7G00212070 Rroxscaffold_7G00212080 Rroxscaffold_7G00212160
rosa_rugosa Rorug05G0542900 Rorug05G0542900 Rorug05G0543000 Rorug05G0543100 Rorug05G0543100 Rorug05G0543200 Rorug05G0543300 Rorug05G0543400 Rorug05G0543400 Rorug05G0543500 Rorug05G0543600 Rorug05G0543700
rosa_samantha Rh6CG050000 Rh6DG045200 Rh6DG045500 Rh6DG045600 Rh6DG045700 Rh6DG045800 Rh6DG046200 Rh6DG046300 Rh6DG046400 Rh6DG046500 Rh6DG046700 Rh6DG046800
rosa_wichuraiana Rw0G000070 Rw6G005230 Rw6G005240 Rw6G005280 Rw6G005290

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 887
AciI CCGC 3 cut(s) 266, 471, 885
AclWI GGATC 3 cut(s) 268, 485, 943
AcsI RAATTY 1 cut(s) 254
AgsI TTSAA 4 cut(s) 565, 640, 705, 763
AjnI CCWGG 2 cut(s) 36, 420
AluBI AGCT 9 cut(s) 316, 430, 488, 542, 626, 809, 950, 965, 997
AluI AGCT 9 cut(s) 316, 430, 488, 542, 626, 809, 950, 965, 997
Alw26I GTCTC 2 cut(s) 185, 907
AlwI GGATC 3 cut(s) 268, 485, 943
AoxI GGCC 4 cut(s) 288, 418, 645, 765
ApeKI GCWGC 2 cut(s) 691, 947
ApoI RAATTY 1 cut(s) 254
AspLEI GCGC 1 cut(s) 29
AspS9I GGNCC 2 cut(s) 7, 288
AsuHPI GGTGA 3 cut(s) 23, 730, 871
AvaII GGWCC 1 cut(s) 7
BbsI GAAGAC 1 cut(s) 915
BbvI GCAGC 2 cut(s) 678, 959
BccI CCATC 2 cut(s) 872, 887
BceAI ACGGC 1 cut(s) 234
BcgI CGANNNNNNTGC 2 cut(s) 734, 768
BciT130I CCWGG 2 cut(s) 38, 422
BclI TGATCA 1 cut(s) 771
BcoDI GTCTC 2 cut(s) 185, 907
BfaI CTAG 4 cut(s) 260, 317, 375, 485
BfmI CTRYAG 2 cut(s) 148, 217
BglII AGATCT 1 cut(s) 459
BisI GCNGC 2 cut(s) 692, 948
BlsI GCNGC 2 cut(s) 693, 949
Bme1390I CCNGG 2 cut(s) 38, 422
Bme18I GGWCC 1 cut(s) 7
BmgT120I GGNCC 2 cut(s) 7, 288
BmiI GGNNCC 1 cut(s) 862
BmrFI CCNGG 2 cut(s) 38, 422
BmrI ACTGGG 1 cut(s) 991
BmsI GCATC 3 cut(s) 112, 253, 319
BmuI ACTGGG 1 cut(s) 991
BpiI GAAGAC 1 cut(s) 915
Bpu10I CCTNAGC 1 cut(s) 441
BpuEI CTTGAG 1 cut(s) 612
BsaI GGTCTC 1 cut(s) 907
BsaJI CCNNGG 4 cut(s) 291, 600, 738, 927
BsaXI ACNNNNNCTCC 2 cut(s) 227, 257
Bse118I RCCGGY 1 cut(s) 755
Bse1I ACTGG 2 cut(s) 67, 986
Bse3DI GCAATG 1 cut(s) 339
BseBI CCWGG 2 cut(s) 38, 422
BseDI CCNNGG 4 cut(s) 291, 600, 738, 927
BseGI GGATG 5 cut(s) 103, 308, 388, 406, 430
BseMI GCAATG 1 cut(s) 339
BseMII CTCAG 6 cut(s) 534, 537, 570, 663, 686, 989
BseNI ACTGG 2 cut(s) 67, 986
BseRI GAGGAG 1 cut(s) 521
BseXI GCAGC 2 cut(s) 678, 959
BseYI CCCAGC 1 cut(s) 71
Bsh1236I CGCG 1 cut(s) 887
BshFI GGCC 4 cut(s) 290, 420, 647, 767
BsiSI CCGG 1 cut(s) 756
BslFI GGGAC 1 cut(s) 462
BsmAI GTCTC 2 cut(s) 185, 907
BsmFI GGGAC 1 cut(s) 462
BsnI GGCC 4 cut(s) 290, 420, 647, 767
Bso31I GGTCTC 1 cut(s) 907
Bsp143I GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
Bsp19I CCATGG 1 cut(s) 927
BspACI CCGC 3 cut(s) 266, 471, 885
BspANI GGCC 4 cut(s) 290, 420, 647, 767
BspCNI CTCAG 6 cut(s) 535, 536, 569, 662, 685, 990
BspFNI CGCG 1 cut(s) 887
BspLI GGNNCC 1 cut(s) 862
BspMAI CTGCAG 1 cut(s) 221
BspPI GGATC 3 cut(s) 268, 485, 943
BspTNI GGTCTC 1 cut(s) 907
BsrDI GCAATG 1 cut(s) 339
BsrFI RCCGGY 1 cut(s) 755
BsrI ACTGG 2 cut(s) 67, 986
BssAI RCCGGY 1 cut(s) 755
BssECI CCNNGG 4 cut(s) 291, 600, 738, 927
BssMI GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
BssT1I CCWWGG 2 cut(s) 291, 927
Bst2UI CCWGG 2 cut(s) 38, 422
Bst4CI ACNGT 3 cut(s) 239, 396, 975
Bst6I CTCTTC 1 cut(s) 819
BstC8I GCNNGC 2 cut(s) 432, 757
BstDEI CTNAG 9 cut(s) 363, 441, 523, 543, 556, 649, 672, 998, 1008
BstDSI CCRYGG 1 cut(s) 927
BstF5I GGATG 5 cut(s) 103, 308, 388, 406, 430
BstFNI CGCG 1 cut(s) 887
BstHHI GCGC 1 cut(s) 29
BstKTI GATC 9 cut(s) 58, 276, 302, 355, 462, 493, 774, 795, 938
BstMAI GTCTC 2 cut(s) 185, 907
BstMBI GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
BstMWI GCNNNNNNNGC 2 cut(s) 72, 815
BstNI CCWGG 2 cut(s) 38, 422
BstSCI CCNGG 2 cut(s) 36, 420
BstSFI CTRYAG 2 cut(s) 148, 217
BstUI CGCG 1 cut(s) 887
BstV1I GCAGC 2 cut(s) 678, 959
BstV2I GAAGAC 1 cut(s) 915
BstX2I RGATCY 1 cut(s) 459
BstYI RGATCY 1 cut(s) 459
BsuRI GGCC 4 cut(s) 290, 420, 647, 767
BtgI CCRYGG 1 cut(s) 927
BtsCI GGATG 5 cut(s) 103, 308, 388, 406, 430
BtsI GCAGTG 1 cut(s) 530
BtsIMutI CAGTG 2 cut(s) 60, 530
Cac8I GCNNGC 2 cut(s) 432, 757
CfoI GCGC 1 cut(s) 29
Cfr10I RCCGGY 1 cut(s) 755
Cfr13I GGNCC 2 cut(s) 7, 288
CseI GACGC 1 cut(s) 909
CviAII CATG 4 cut(s) 549, 769, 928, 1017
DdeI CTNAG 9 cut(s) 363, 441, 523, 543, 556, 649, 672, 998, 1008
DpnI GATC 9 cut(s) 57, 275, 301, 354, 461, 492, 773, 794, 937
DpnII GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
Eam1104I CTCTTC 1 cut(s) 819
EarI CTCTTC 1 cut(s) 819
Eco130I CCWWGG 2 cut(s) 291, 927
Eco31I GGTCTC 1 cut(s) 907
Eco47I GGWCC 1 cut(s) 7
EcoRII CCWGG 2 cut(s) 36, 420
EcoT14I CCWWGG 2 cut(s) 291, 927
ErhI CCWWGG 2 cut(s) 291, 927
FaeI CATG 4 cut(s) 552, 772, 931, 1020
FaiI YATR 7 cut(s) 165, 286, 550, 711, 770, 929, 1018
FalI AAGNNNNNCTT 2 cut(s) 128, 160
FaqI GGGAC 1 cut(s) 462
FatI CATG 4 cut(s) 548, 768, 927, 1016
FauI CCCGC 1 cut(s) 464
FbaI TGATCA 1 cut(s) 771
Fnu4HI GCNGC 2 cut(s) 692, 948
FokI GGATG 5 cut(s) 90, 295, 375, 413, 437
Fsp4HI GCNGC 2 cut(s) 692, 948
FspBI CTAG 4 cut(s) 260, 317, 375, 485
GlaI GCGC 1 cut(s) 28
GluI GCNGC 2 cut(s) 692, 948
GsaI CCCAGC 1 cut(s) 75
HaeIII GGCC 4 cut(s) 290, 420, 647, 767
HapII CCGG 1 cut(s) 756
HgaI GACGC 1 cut(s) 909
HhaI GCGC 1 cut(s) 29
Hin1II CATG 4 cut(s) 552, 772, 931, 1020
Hin6I GCGC 1 cut(s) 27
HinP1I GCGC 1 cut(s) 27
HincII GTYRAC 2 cut(s) 214, 571
HindII GTYRAC 2 cut(s) 214, 571
HindIII AAGCTT 1 cut(s) 807
HinfI GANTC 1 cut(s) 545
HpaI GTTAAC 1 cut(s) 571
HpaII CCGG 1 cut(s) 756
HphI GGTGA 3 cut(s) 23, 730, 871
Hpy166II GTNNAC 2 cut(s) 214, 571
Hpy188I TCNGA 7 cut(s) 559, 601, 652, 675, 742, 907, 979
Hpy188III TCNNGA 5 cut(s) 10, 188, 260, 629, 868
Hpy8I GTNNAC 2 cut(s) 214, 571
HpyAV CCTTC 3 cut(s) 559, 634, 926
HpyCH4III ACNGT 3 cut(s) 239, 396, 975
HpyCH4IV ACGT 1 cut(s) 608
HpyCH4V TGCA 8 cut(s) 90, 219, 332, 434, 502, 591, 694, 1016
HpyF10VI GCNNNNNNNGC 2 cut(s) 72, 815
HpyF3I CTNAG 9 cut(s) 363, 441, 523, 543, 556, 649, 672, 998, 1008
HpySE526I ACGT 1 cut(s) 608
Hsp92II CATG 4 cut(s) 552, 772, 931, 1020
HspAI GCGC 1 cut(s) 27
KroI GCCGGC 1 cut(s) 755
KroNI GCCGGC 1 cut(s) 757
Ksp22I TGATCA 1 cut(s) 771
KspAI GTTAAC 1 cut(s) 571
Kzo9I GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
Lsp1109I GCAGC 2 cut(s) 678, 959
LweI GCATC 3 cut(s) 112, 253, 319
MaeI CTAG 4 cut(s) 260, 317, 375, 485
MaeII ACGT 1 cut(s) 608
MaeIII GTNAC 3 cut(s) 221, 239, 877
MalI GATC 9 cut(s) 57, 275, 301, 354, 461, 492, 773, 794, 937
MboI GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
MboII GAAGA 8 cut(s) 136, 297, 469, 688, 733, 797, 836, 915
MflI RGATCY 1 cut(s) 459
MluCI AATT 9 cut(s) 115, 226, 231, 254, 281, 369, 560, 729, 956
MlyI GAGTC 1 cut(s) 554
MmeI TCCRAC 4 cut(s) 378, 762, 783, 957
MroNI GCCGGC 1 cut(s) 755
MseI TTAA 3 cut(s) 230, 476, 570
MslI CAYNNNNRTG 1 cut(s) 586
MspA1I CMGCKG 1 cut(s) 542
MspI CCGG 1 cut(s) 756
MspR9I CCNGG 2 cut(s) 38, 422
MvaI CCWGG 2 cut(s) 38, 422
MvnI CGCG 1 cut(s) 887
MwoI GCNNNNNNNGC 2 cut(s) 72, 815
NaeI GCCGGC 1 cut(s) 757
NcoI CCATGG 1 cut(s) 927
NdeII GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
NgoMIV GCCGGC 1 cut(s) 755
NlaIII CATG 4 cut(s) 552, 772, 931, 1020
NlaIV GGNNCC 1 cut(s) 862
NmuCI GTSAC 1 cut(s) 877
PcsI WCGNNNNNNNCGW 2 cut(s) 741, 864
PdiI GCCGGC 1 cut(s) 757
PkrI GCNGC 2 cut(s) 693, 949
PleI GAGTC 1 cut(s) 553
PpsI GAGTC 1 cut(s) 553
Psp6I CCWGG 2 cut(s) 36, 420
PspFI CCCAGC 1 cut(s) 71
PspGI CCWGG 2 cut(s) 36, 420
PspN4I GGNNCC 1 cut(s) 862
PspPI GGNCC 2 cut(s) 7, 288
PstI CTGCAG 1 cut(s) 221
PsuI RGATCY 1 cut(s) 459
PvuII CAGCTG 1 cut(s) 542
RseI CAYNNNNRTG 1 cut(s) 586
SaqAI TTAA 3 cut(s) 230, 476, 570
SatI GCNGC 2 cut(s) 692, 948
Sau3AI GATC 9 cut(s) 55, 273, 299, 352, 459, 490, 771, 792, 935
Sau96I GGNCC 2 cut(s) 7, 288
SchI GAGTC 1 cut(s) 554
ScrFI CCNGG 2 cut(s) 38, 422
SfaNI GCATC 3 cut(s) 112, 253, 319
SfcI CTRYAG 2 cut(s) 148, 217
SinI GGWCC 1 cut(s) 7
SmiMI CAYNNNNRTG 1 cut(s) 586
SmlI CTYRAG 1 cut(s) 627
SmoI CTYRAG 1 cut(s) 627
Sse9I AATT 9 cut(s) 115, 226, 231, 254, 281, 369, 560, 729, 956
SsiI CCGC 3 cut(s) 266, 471, 885
SspMI CTAG 4 cut(s) 260, 317, 375, 485
StyD4I CCNGG 2 cut(s) 36, 420
StyI CCWWGG 2 cut(s) 291, 927
TaaI ACNGT 3 cut(s) 239, 396, 975
TaiI ACGT 1 cut(s) 611
TaqI TCGA 4 cut(s) 298, 867, 938, 967
TasI AATT 9 cut(s) 115, 226, 231, 254, 281, 369, 560, 729, 956
Tru1I TTAA 3 cut(s) 230, 476, 570
Tru9I TTAA 3 cut(s) 230, 476, 570
TscAI CASTG 2 cut(s) 67, 537
TseFI GTSAC 1 cut(s) 877
TseI GCWGC 2 cut(s) 691, 947
Tsp45I GTSAC 1 cut(s) 877
TspDTI ATGAA 4 cut(s) 163, 297, 377, 567
TspGWI ACGGA 2 cut(s) 199, 469
TspRI CASTG 2 cut(s) 67, 537
VpaK11BI GGWCC 1 cut(s) 7
XapI RAATTY 1 cut(s) 254
XbaI TCTAGA 1 cut(s) 259
XcmI CCANNNNNNNNNTGG 1 cut(s) 114
XspI CTAG 4 cut(s) 260, 317, 375, 485
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.