Rh6DG046300

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000538
Physical Location & Seq
Reverse (-)
4860514 .. 4862568
2055 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG046300.1

Sequence Viewer

Length: 1017 bp
ATGACCCAGACACAGTGCGCTCACTCCTTGGCTTCCATTTCCTGTAACCCCACTGTCGTTCCCAACCCTGACACTCCCTGCAAAAGATGTCAGCATCCAGGACCAAAAGGGAATTGGTTTTGTTTGTCCTGTAAGGAAATCTTCTGTTGTACTAGTGTGAATGGACATTTTATTCAGCATTATGAGAAGACAAAGCACTGTCTTTGTGTCAACTGCAGCACAAAATCAATTTACTGTTGCTCCTGCAGTAAAACTCTAGATGTGCAAGTGATCCAACAATTATGGGTCAAGGGTCGATCCACTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATCGATCTCTTGTCTAAGCCATTTCCTAGCATCAATGTTCATCCACAGTTGGATGCTCAGTCATTTGTAGGCCAGGATGAGCTTGCATTGGCTAAGGAGGGACTGCAAAGGATCTTTGATAACGGGTTAATAGCTGTAGCTGATCCCAAAGTGCAAGAAAAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCCGAGTCATGCCCCTCAGAATTGAAGGTTAATCTGTCATCATTCAGATGCAATCTTTCAGACGAAACCTCTGCTTTCATCAAAGCTCAAGATGAGTTGAAGGTGACCTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTAGTGCGGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTTGCCTCGGACGAGAAAGTTTCTAACTTCAAGGCCATGATCAAAGAACTGGAAGCACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACGGAAGAGAGCAACAAAGCAAAGAATGATGAGGCTATTGATTCCATCGAGAAACAAGTCACCACCGCGAGAGATGGATTGGTCTCGGACTTGGCACAAGTGTCTTCCATGGAAGGATCGACCCAAGGAGCTAACGAGTTAGTAGCTCGAAAACAGTCGGACTGGGATAACTTAAAGCTTAGTTTTACCAAGTTTGCATGA
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

338

Amino Acids

37.35

Weight (kDa)

6.12

Isoelectric Point (pI)

32.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 27 - 87 8.9e-14 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) 884
AciI CCGC 2 cut(s) 688, 882
AclWI GGATC 5 cut(s) 265, 291, 464, 482, 940
AfaI GTAC 1 cut(s) 151
AgsI TTSAA 4 cut(s) 562, 637, 702, 760
AhlI ACTAGT 1 cut(s) 152
AjnI CCWGG 2 cut(s) 97, 417
AluBI AGCT 9 cut(s) 313, 427, 479, 485, 623, 806, 947, 962, 994
AluI AGCT 9 cut(s) 313, 427, 479, 485, 623, 806, 947, 962, 994
Alw26I GTCTC 1 cut(s) 904
AlwI GGATC 5 cut(s) 265, 291, 464, 482, 940
AoxI GGCC 2 cut(s) 415, 762
ApeKI GCWGC 1 cut(s) 216
Asp700I GAANNNNTTC 1 cut(s) 507
AspLEI GCGC 1 cut(s) 20
AspS9I GGNCC 1 cut(s) 101
AsuHPI GGTGA 3 cut(s) 652, 727, 868
AvaII GGWCC 1 cut(s) 101
BbsI GAAGAC 2 cut(s) 194, 912
BbvI GCAGC 1 cut(s) 228
BccI CCATC 2 cut(s) 869, 884
BcgI CGANNNNNNTGC 2 cut(s) 590, 624
BciT130I CCWGG 2 cut(s) 99, 419
BclI TGATCA 1 cut(s) 768
BcoDI GTCTC 1 cut(s) 904
BcuI ACTAGT 1 cut(s) 152
BfaI CTAG 4 cut(s) 153, 257, 314, 372
BfmI CTRYAG 3 cut(s) 214, 244, 480
BisI GCNGC 2 cut(s) 217, 689
BlsI GCNGC 2 cut(s) 218, 690
Bme1390I CCNGG 2 cut(s) 99, 419
Bme18I GGWCC 1 cut(s) 101
BmgT120I GGNCC 1 cut(s) 101
BmrFI CCNGG 2 cut(s) 99, 419
BmrI ACTGGG 1 cut(s) 988
BmsI GCATC 5 cut(s) 103, 316, 384, 388, 575
BmuI ACTGGG 1 cut(s) 988
BpiI GAAGAC 2 cut(s) 194, 912
Bpu10I CCTNAGC 1 cut(s) 438
BpuEI CTTGAG 1 cut(s) 609
Bsa29I ATCGAT 1 cut(s) 348
BsaI GGTCTC 1 cut(s) 904
BsaJI CCNNGG 5 cut(s) 27, 735, 816, 924, 940
BsaXI ACNNNNNCTCC 2 cut(s) 224, 254
Bse1I ACTGG 2 cut(s) 783, 983
Bse3DI GCAATG 1 cut(s) 336
BseBI CCWGG 2 cut(s) 99, 419
BseCI ATCGAT 1 cut(s) 348
BseDI CCNNGG 5 cut(s) 27, 735, 816, 924, 940
BseGI GGATG 5 cut(s) 94, 305, 385, 403, 427
BseMI GCAATG 1 cut(s) 336
BseMII CTCAG 5 cut(s) 416, 534, 567, 660, 683
BseNI ACTGG 2 cut(s) 783, 983
BseXI GCAGC 1 cut(s) 228
Bsh1236I CGCG 1 cut(s) 884
BshFI GGCC 2 cut(s) 417, 764
BshVI ATCGAT 1 cut(s) 348
BslFI GGGAC 1 cut(s) 459
BsmAI GTCTC 1 cut(s) 904
BsmFI GGGAC 1 cut(s) 459
BsnI GGCC 2 cut(s) 417, 764
Bso31I GGTCTC 1 cut(s) 904
Bsp143I GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
Bsp19I CCATGG 1 cut(s) 924
BspACI CCGC 2 cut(s) 688, 882
BspANI GGCC 2 cut(s) 417, 764
BspCNI CTCAG 5 cut(s) 415, 533, 566, 659, 682
BspDI ATCGAT 1 cut(s) 348
BspFNI CGCG 1 cut(s) 884
BspMAI CTGCAG 2 cut(s) 218, 248
BspPI GGATC 5 cut(s) 265, 291, 464, 482, 940
BspTNI GGTCTC 1 cut(s) 904
BsrDI GCAATG 1 cut(s) 336
BsrI ACTGG 2 cut(s) 783, 983
BssECI CCNNGG 5 cut(s) 27, 735, 816, 924, 940
BssMI GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
BssT1I CCWWGG 3 cut(s) 27, 924, 940
Bst2UI CCWGG 2 cut(s) 99, 419
Bst4CI ACNGT 6 cut(s) 15, 55, 200, 236, 393, 972
Bst6I CTCTTC 1 cut(s) 816
BstC8I GCNNGC 1 cut(s) 429
BstDEI CTNAG 8 cut(s) 360, 402, 438, 520, 553, 646, 669, 995
BstDSI CCRYGG 2 cut(s) 816, 924
BstEII GGTNACC 1 cut(s) 640
BstF5I GGATG 5 cut(s) 94, 305, 385, 403, 427
BstFNI CGCG 1 cut(s) 884
BstHHI GCGC 1 cut(s) 20
BstKTI GATC 7 cut(s) 273, 299, 352, 459, 490, 771, 935
BstMAI GTCTC 1 cut(s) 904
BstMBI GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
BstMWI GCNNNNNNNGC 1 cut(s) 812
BstNI CCWGG 2 cut(s) 99, 419
BstPI GGTNACC 1 cut(s) 640
BstSCI CCNGG 2 cut(s) 97, 417
BstSFI CTRYAG 3 cut(s) 214, 244, 480
BstUI CGCG 1 cut(s) 884
BstV1I GCAGC 1 cut(s) 228
BstV2I GAAGAC 2 cut(s) 194, 912
BstX2I RGATCY 1 cut(s) 456
BstYI RGATCY 1 cut(s) 456
Bsu15I ATCGAT 1 cut(s) 348
BsuRI GGCC 2 cut(s) 417, 764
BsuTUI ATCGAT 1 cut(s) 348
BtgI CCRYGG 2 cut(s) 816, 924
BtsCI GGATG 5 cut(s) 94, 305, 385, 403, 427
BtsI GCAGTG 1 cut(s) 527
BtsIMutI CAGTG 4 cut(s) 20, 51, 196, 527
Cac8I GCNNGC 1 cut(s) 429
CfoI GCGC 1 cut(s) 20
Cfr13I GGNCC 1 cut(s) 101
ClaI ATCGAT 1 cut(s) 348
Csp6I GTAC 1 cut(s) 150
CviAII CATG 4 cut(s) 546, 766, 925, 1014
CviQI GTAC 1 cut(s) 150
DdeI CTNAG 8 cut(s) 360, 402, 438, 520, 553, 646, 669, 995
DpnI GATC 7 cut(s) 272, 298, 351, 458, 489, 770, 934
DpnII GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
Eam1104I CTCTTC 1 cut(s) 816
EarI CTCTTC 1 cut(s) 816
Eco130I CCWWGG 3 cut(s) 27, 924, 940
Eco31I GGTCTC 1 cut(s) 904
Eco47I GGWCC 1 cut(s) 101
Eco91I GGTNACC 1 cut(s) 640
EcoO65I GGTNACC 1 cut(s) 640
EcoRII CCWGG 2 cut(s) 97, 417
EcoT14I CCWWGG 3 cut(s) 27, 924, 940
ErhI CCWWGG 3 cut(s) 27, 924, 940
FaeI CATG 4 cut(s) 549, 769, 928, 1017
FaiI YATR 7 cut(s) 183, 283, 547, 708, 767, 926, 1015
FalI AAGNNNNNCTT 2 cut(s) 125, 157
FaqI GGGAC 1 cut(s) 459
FatI CATG 4 cut(s) 545, 765, 924, 1013
FbaI TGATCA 1 cut(s) 768
Fnu4HI GCNGC 2 cut(s) 217, 689
FokI GGATG 5 cut(s) 81, 292, 372, 410, 434
Fsp4HI GCNGC 2 cut(s) 217, 689
FspBI CTAG 4 cut(s) 153, 257, 314, 372
GlaI GCGC 1 cut(s) 19
GluI GCNGC 2 cut(s) 217, 689
HaeIII GGCC 2 cut(s) 417, 764
HhaI GCGC 1 cut(s) 20
Hin1II CATG 4 cut(s) 549, 769, 928, 1017
Hin6I GCGC 1 cut(s) 18
HinP1I GCGC 1 cut(s) 18
HincII GTYRAC 1 cut(s) 211
HindII GTYRAC 1 cut(s) 211
HindIII AAGCTT 2 cut(s) 804, 992
HinfI GANTC 2 cut(s) 542, 857
HphI GGTGA 3 cut(s) 652, 727, 868
Hpy166II GTNNAC 1 cut(s) 211
Hpy188I TCNGA 8 cut(s) 556, 584, 598, 649, 672, 739, 904, 976
Hpy188III TCNNGA 3 cut(s) 257, 626, 865
Hpy8I GTNNAC 1 cut(s) 211
HpyAV CCTTC 3 cut(s) 556, 631, 923
HpyCH4III ACNGT 6 cut(s) 15, 55, 200, 236, 393, 972
HpyF10VI GCNNNNNNNGC 1 cut(s) 812
HpyF3I CTNAG 8 cut(s) 360, 402, 438, 520, 553, 646, 669, 995
Hsp92II CATG 4 cut(s) 549, 769, 928, 1017
HspAI GCGC 1 cut(s) 18
Ksp22I TGATCA 1 cut(s) 768
Kzo9I GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
LmnI GCTCC 2 cut(s) 245, 944
Lsp1109I GCAGC 1 cut(s) 228
LweI GCATC 5 cut(s) 103, 316, 384, 388, 575
MaeI CTAG 4 cut(s) 153, 257, 314, 372
MaeIII GTNAC 3 cut(s) 44, 640, 874
MalI GATC 7 cut(s) 272, 298, 351, 458, 489, 770, 934
MboI GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
MboII GAAGA 6 cut(s) 133, 199, 685, 730, 833, 912
MflI RGATCY 1 cut(s) 456
MluCI AATT 5 cut(s) 112, 228, 278, 557, 726
MlyI GAGTC 1 cut(s) 551
MmeI TCCRAC 4 cut(s) 298, 375, 780, 954
MnlI CCTC 8 cut(s) 436, 562, 616, 655, 670, 706, 745, 841
MroXI GAANNNNTTC 1 cut(s) 507
MseI TTAA 3 cut(s) 473, 567, 989
MslI CAYNNNNRTG 1 cut(s) 583
MspR9I CCNGG 2 cut(s) 99, 419
MvaI CCWGG 2 cut(s) 99, 419
MvnI CGCG 1 cut(s) 884
MwoI GCNNNNNNNGC 1 cut(s) 812
NcoI CCATGG 1 cut(s) 924
NdeII GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
NlaIII CATG 4 cut(s) 549, 769, 928, 1017
NmeAIII GCCGAG 1 cut(s) 565
NmuCI GTSAC 2 cut(s) 640, 874
PdmI GAANNNNTTC 1 cut(s) 507
PfeI GAWTC 1 cut(s) 857
PfoI TCCNGGA 1 cut(s) 97
PkrI GCNGC 2 cut(s) 218, 690
PleI GAGTC 1 cut(s) 550
PpsI GAGTC 1 cut(s) 550
Psp6I CCWGG 2 cut(s) 97, 417
PspEI GGTNACC 1 cut(s) 640
PspGI CCWGG 2 cut(s) 97, 417
PspPI GGNCC 1 cut(s) 101
PstI CTGCAG 2 cut(s) 218, 248
PsuI RGATCY 1 cut(s) 456
RsaI GTAC 1 cut(s) 151
RsaNI GTAC 1 cut(s) 150
RseI CAYNNNNRTG 1 cut(s) 583
SaqAI TTAA 3 cut(s) 473, 567, 989
SatI GCNGC 2 cut(s) 217, 689
Sau3AI GATC 7 cut(s) 270, 296, 349, 456, 487, 768, 932
Sau96I GGNCC 1 cut(s) 101
SchI GAGTC 1 cut(s) 551
ScrFI CCNGG 2 cut(s) 99, 419
SfaNI GCATC 5 cut(s) 103, 316, 384, 388, 575
SfcI CTRYAG 3 cut(s) 214, 244, 480
SinI GGWCC 1 cut(s) 101
SmiMI CAYNNNNRTG 1 cut(s) 583
SmlI CTYRAG 1 cut(s) 624
SmoI CTYRAG 1 cut(s) 624
SpeI ACTAGT 1 cut(s) 152
Sse9I AATT 5 cut(s) 112, 228, 278, 557, 726
SsiI CCGC 2 cut(s) 688, 882
SspMI CTAG 4 cut(s) 153, 257, 314, 372
StyD4I CCNGG 2 cut(s) 97, 417
StyI CCWWGG 3 cut(s) 27, 924, 940
TaaI ACNGT 6 cut(s) 15, 55, 200, 236, 393, 972
TaqI TCGA 5 cut(s) 295, 348, 864, 935, 964
TasI AATT 5 cut(s) 112, 228, 278, 557, 726
TatI WGTACW 1 cut(s) 149
TauI GCSGC 1 cut(s) 691
TfiI GAWTC 1 cut(s) 857
Tru1I TTAA 3 cut(s) 473, 567, 989
Tru9I TTAA 3 cut(s) 473, 567, 989
TscAI CASTG 4 cut(s) 20, 58, 203, 534
TseFI GTSAC 2 cut(s) 640, 874
TseI GCWGC 1 cut(s) 216
Tsp45I GTSAC 2 cut(s) 640, 874
TspDTI ATGAA 3 cut(s) 294, 374, 604
TspGWI ACGGA 1 cut(s) 833
TspRI CASTG 4 cut(s) 20, 58, 203, 534
VpaK11BI GGWCC 1 cut(s) 101
XbaI TCTAGA 1 cut(s) 256
XcmI CCANNNNNNNNNTGG 1 cut(s) 111
XmnI GAANNNNTTC 1 cut(s) 507
XspI CTAG 4 cut(s) 153, 257, 314, 372
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.