Rh6DG046700

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000538
Physical Location & Seq
Reverse (-)
4929990 .. 4976281
46292 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG046700.1

Sequence Viewer

Length: 1023 bp
ATGAGCCAGACACAGTGCGATCACCACCTCGCTTTCCTTTCCTGTGATCTCACTGGCGTTCCCAACCCCTACACTCCCTGCAAAAGATGTCAGCATCCAAAAGAGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTTGTACTAGTGCGAAAGGACATTTTATTCAGCACTATCAGGAGACAAAGCATTGTCTTTGTGTCAACTGCGGTACAAAATCAATTTACTGTTGCTCCTGCCGTAAACATTTAGATGCGCAAGTGATCCAACAATTGTGGGCCAAGCAGGGTCGATCATCTTCATCATCTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGATCTCTTGTCTAAGCCAATTCCTAGTATCAATGTTCATCCACAGTTGGATGCTCAGTCGTTTGGAGGCCAGGATGAGCTTGCATTGGCTAAGGAGGGACTCCGGAAGATCTTTGATTGCGGGTTAAAGGCTCTAGCTGATCCCAAAGTGCAAGAAGAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCTGAGTCATGCCCCTCAGAATTGAAGGTTAACCTTTCATCATTCAGGTGCAATCTTTCCGAGGAAACGTCTGCTTTCGTCAAAGCTCAAGATGAGTTGAAGGTGACCTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTGGTGCTGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTCGCCTTGGACGAGAAAGTTGCCGGCTTCAAGGCAATGATCAAAGAGTTGGAAGAACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACAGAAGAGAGCAACAGGGTAAAGATTGATGAGGCTATCGGTTCCATCGAGAAACAAGTCACCACCGCGAGAGATGGATTGGTCTCGGACTTGGCACAAGCGTCTTCCATGGAAGGATCGACCCAAGCAGCTAACGAATTAGTAGCTCGAAAACAGTCGGACTGGGATAACCTAAAGCTGAGTTTTACTAAGTTTGCATGA
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

340

Amino Acids

37.69

Weight (kDa)

5.96

Isoelectric Point (pI)

43.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 27 - 85 3.7e-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
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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)
Acc16I TGCGCA 1 cut(s) 258
AccII CGCG 1 cut(s) 890
AccIII TCCGGA 1 cut(s) 456
AciI CCGC 3 cut(s) 210, 474, 888
AclWI GGATC 3 cut(s) 259, 488, 946
AfaI GTAC 2 cut(s) 145, 214
AgsI TTSAA 4 cut(s) 568, 643, 708, 766
AhlI ACTAGT 1 cut(s) 146
AjnI CCWGG 1 cut(s) 423
AluBI AGCT 9 cut(s) 319, 433, 491, 545, 629, 812, 953, 968, 1000
AluI AGCT 9 cut(s) 319, 433, 491, 545, 629, 812, 953, 968, 1000
Alw26I GTCTC 2 cut(s) 176, 910
AlwI GGATC 3 cut(s) 259, 488, 946
Aor13HI TCCGGA 1 cut(s) 456
AoxI GGCC 2 cut(s) 279, 421
ApeKI GCWGC 2 cut(s) 694, 950
Asp700I GAANNNNTTC 1 cut(s) 513
AspLEI GCGC 1 cut(s) 259
AspS9I GGNCC 1 cut(s) 279
AsuHPI GGTGA 4 cut(s) 14, 658, 733, 874
BbsI GAAGAC 1 cut(s) 918
BbvI GCAGC 2 cut(s) 681, 962
BccI CCATC 2 cut(s) 875, 890
BceAI ACGGC 1 cut(s) 225
BcgI CGANNNNNNTGC 2 cut(s) 737, 771
BciT130I CCWGG 1 cut(s) 425
BclI TGATCA 1 cut(s) 774
BcoDI GTCTC 2 cut(s) 176, 910
BcuI ACTAGT 1 cut(s) 146
BfaI CTAG 4 cut(s) 147, 320, 378, 488
BglII AGATCT 1 cut(s) 462
BisI GCNGC 2 cut(s) 695, 951
BlsI GCNGC 2 cut(s) 696, 952
Bme1390I CCNGG 1 cut(s) 425
BmgT120I GGNCC 1 cut(s) 279
BmiI GGNNCC 1 cut(s) 865
BmrFI CCNGG 1 cut(s) 425
BmrI ACTGGG 1 cut(s) 994
BmsI GCATC 4 cut(s) 103, 244, 322, 394
BmuI ACTGGG 1 cut(s) 994
BpiI GAAGAC 1 cut(s) 918
Bpu10I CCTNAGC 1 cut(s) 444
BpuEI CTTGAG 1 cut(s) 615
BsaI GGTCTC 1 cut(s) 910
BsaJI CCNNGG 3 cut(s) 603, 741, 930
BsaWI WCCGGW 1 cut(s) 456
BsaXI ACNNNNNCTCC 2 cut(s) 218, 248
Bse118I RCCGGY 1 cut(s) 758
Bse1I ACTGG 2 cut(s) 58, 989
Bse3DI GCAATG 2 cut(s) 342, 777
BseAI TCCGGA 1 cut(s) 456
BseBI CCWGG 1 cut(s) 425
BseDI CCNNGG 3 cut(s) 603, 741, 930
BseGI GGATG 5 cut(s) 94, 311, 391, 409, 433
BseMI GCAATG 2 cut(s) 342, 777
BseMII CTCAG 7 cut(s) 422, 537, 540, 573, 666, 689, 992
BseNI ACTGG 2 cut(s) 58, 989
BseXI GCAGC 2 cut(s) 681, 962
Bsh1236I CGCG 1 cut(s) 890
BshFI GGCC 2 cut(s) 281, 423
BsiSI CCGG 2 cut(s) 457, 759
BslFI GGGAC 1 cut(s) 465
BsmAI GTCTC 2 cut(s) 176, 910
BsmFI GGGAC 1 cut(s) 465
BsnI GGCC 2 cut(s) 281, 423
Bso31I GGTCTC 1 cut(s) 910
Bsp13I TCCGGA 1 cut(s) 456
Bsp143I GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
Bsp19I CCATGG 1 cut(s) 930
BspACI CCGC 3 cut(s) 210, 474, 888
BspANI GGCC 2 cut(s) 281, 423
BspCNI CTCAG 7 cut(s) 421, 538, 539, 572, 665, 688, 993
BspEI TCCGGA 1 cut(s) 456
BspFNI CGCG 1 cut(s) 890
BspLI GGNNCC 1 cut(s) 865
BspPI GGATC 3 cut(s) 259, 488, 946
BspTNI GGTCTC 1 cut(s) 910
BsrDI GCAATG 2 cut(s) 342, 777
BsrFI RCCGGY 1 cut(s) 758
BsrI ACTGG 2 cut(s) 58, 989
BssAI RCCGGY 1 cut(s) 758
BssECI CCNNGG 3 cut(s) 603, 741, 930
BssMI GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
BssT1I CCWWGG 2 cut(s) 741, 930
Bst2UI CCWGG 1 cut(s) 425
Bst4CI ACNGT 4 cut(s) 15, 230, 399, 978
Bst6I CTCTTC 2 cut(s) 504, 822
BstC8I GCNNGC 2 cut(s) 435, 760
BstDSI CCRYGG 1 cut(s) 930
BstEII GGTNACC 1 cut(s) 646
BstF5I GGATG 5 cut(s) 94, 311, 391, 409, 433
BstFNI CGCG 1 cut(s) 890
BstHHI GCGC 1 cut(s) 259
BstKTI GATC 9 cut(s) 22, 49, 267, 296, 358, 465, 496, 777, 941
BstMAI GTCTC 2 cut(s) 176, 910
BstMBI GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
BstMWI GCNNNNNNNGC 1 cut(s) 818
BstNI CCWGG 1 cut(s) 425
BstPI GGTNACC 1 cut(s) 646
BstSCI CCNGG 1 cut(s) 423
BstUI CGCG 1 cut(s) 890
BstV1I GCAGC 2 cut(s) 681, 962
BstV2I GAAGAC 1 cut(s) 918
BstX2I RGATCY 1 cut(s) 462
BstYI RGATCY 1 cut(s) 462
BsuRI GGCC 2 cut(s) 281, 423
BtgI CCRYGG 1 cut(s) 930
BtsCI GGATG 5 cut(s) 94, 311, 391, 409, 433
BtsI GCAGTG 1 cut(s) 533
BtsIMutI CAGTG 3 cut(s) 20, 51, 533
Cac8I GCNNGC 2 cut(s) 435, 760
CfoI GCGC 1 cut(s) 259
Cfr10I RCCGGY 1 cut(s) 758
Cfr13I GGNCC 1 cut(s) 279
CseI GACGC 1 cut(s) 912
Csp6I GTAC 2 cut(s) 144, 213
CspCI CAANNNNNGTGG 2 cut(s) 257, 292
CviAII CATG 3 cut(s) 552, 931, 1020
CviQI GTAC 2 cut(s) 144, 213
DpnI GATC 9 cut(s) 21, 48, 266, 295, 357, 464, 495, 776, 940
DpnII GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
Eam1104I CTCTTC 2 cut(s) 504, 822
EarI CTCTTC 2 cut(s) 504, 822
Eco130I CCWWGG 2 cut(s) 741, 930
Eco31I GGTCTC 1 cut(s) 910
Eco91I GGTNACC 1 cut(s) 646
EcoO65I GGTNACC 1 cut(s) 646
EcoRII CCWGG 1 cut(s) 423
EcoT14I CCWWGG 2 cut(s) 741, 930
ErhI CCWWGG 2 cut(s) 741, 930
FaeI CATG 3 cut(s) 555, 934, 1023
FaiI YATR 4 cut(s) 553, 714, 932, 1021
FalI AAGNNNNNCTT 2 cut(s) 119, 151
FaqI GGGAC 1 cut(s) 465
FatI CATG 3 cut(s) 551, 930, 1019
FauI CCCGC 1 cut(s) 467
FbaI TGATCA 1 cut(s) 774
Fnu4HI GCNGC 2 cut(s) 695, 951
FokI GGATG 5 cut(s) 81, 298, 378, 416, 440
Fsp4HI GCNGC 2 cut(s) 695, 951
FspBI CTAG 4 cut(s) 147, 320, 378, 488
FspI TGCGCA 1 cut(s) 258
GlaI GCGC 1 cut(s) 258
GluI GCNGC 2 cut(s) 695, 951
HaeIII GGCC 2 cut(s) 281, 423
HapII CCGG 2 cut(s) 457, 759
HgaI GACGC 1 cut(s) 912
HhaI GCGC 1 cut(s) 259
Hin1II CATG 3 cut(s) 555, 934, 1023
Hin6I GCGC 1 cut(s) 257
HinP1I GCGC 1 cut(s) 257
HincII GTYRAC 2 cut(s) 205, 574
HindII GTYRAC 2 cut(s) 205, 574
HindIII AAGCTT 1 cut(s) 810
HinfI GANTC 2 cut(s) 453, 548
HpaI GTTAAC 1 cut(s) 574
HpaII CCGG 2 cut(s) 457, 759
HphI GGTGA 4 cut(s) 14, 658, 733, 874
Hpy166II GTNNAC 3 cut(s) 205, 245, 574
Hpy188I TCNGA 6 cut(s) 562, 604, 655, 678, 910, 982
Hpy188III TCNNGA 4 cut(s) 179, 457, 632, 871
Hpy8I GTNNAC 3 cut(s) 205, 245, 574
HpyAV CCTTC 3 cut(s) 562, 637, 929
HpyCH4III ACNGT 4 cut(s) 15, 230, 399, 978
HpyCH4IV ACGT 1 cut(s) 611
HpyCH4V TGCA 7 cut(s) 81, 335, 437, 505, 594, 697, 1019
HpyF10VI GCNNNNNNNGC 1 cut(s) 818
HpySE526I ACGT 1 cut(s) 611
Hsp92II CATG 3 cut(s) 555, 934, 1023
HspAI GCGC 1 cut(s) 257
Kpn2I TCCGGA 1 cut(s) 456
KroI GCCGGC 1 cut(s) 758
KroNI GCCGGC 1 cut(s) 760
Ksp22I TGATCA 1 cut(s) 774
KspAI GTTAAC 1 cut(s) 574
Kzo9I GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
LmnI GCTCC 1 cut(s) 239
Lsp1109I GCAGC 2 cut(s) 681, 962
LweI GCATC 4 cut(s) 103, 244, 322, 394
MaeI CTAG 4 cut(s) 147, 320, 378, 488
MaeII ACGT 1 cut(s) 611
MaeIII GTNAC 2 cut(s) 646, 880
MalI GATC 9 cut(s) 21, 48, 266, 295, 357, 464, 495, 776, 940
MboI GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
MfeI CAATTG 1 cut(s) 272
MflI RGATCY 1 cut(s) 462
MluCI AATT 7 cut(s) 106, 222, 272, 372, 563, 732, 959
MlyI GAGTC 2 cut(s) 447, 557
MmeI TCCRAC 5 cut(s) 292, 381, 765, 786, 960
MnlI CCTC 9 cut(s) 38, 413, 442, 568, 598, 661, 676, 712, 847
MroI TCCGGA 1 cut(s) 456
MroNI GCCGGC 1 cut(s) 758
MroXI GAANNNNTTC 1 cut(s) 513
MseI TTAA 2 cut(s) 479, 573
MslI CAYNNNNRTG 2 cut(s) 252, 589
MspA1I CMGCKG 1 cut(s) 545
MspI CCGG 2 cut(s) 457, 759
MspR9I CCNGG 1 cut(s) 425
MunI CAATTG 1 cut(s) 272
MvaI CCWGG 1 cut(s) 425
MvnI CGCG 1 cut(s) 890
MwoI GCNNNNNNNGC 1 cut(s) 818
NaeI GCCGGC 1 cut(s) 760
NcoI CCATGG 1 cut(s) 930
NdeII GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
NgoMIV GCCGGC 1 cut(s) 758
NlaIII CATG 3 cut(s) 555, 934, 1023
NlaIV GGNNCC 1 cut(s) 865
NmuCI GTSAC 2 cut(s) 646, 880
NsbI TGCGCA 1 cut(s) 258
PcsI WCGNNNNNNNCGW 2 cut(s) 744, 867
PdiI GCCGGC 1 cut(s) 760
PdmI GAANNNNTTC 1 cut(s) 513
PkrI GCNGC 2 cut(s) 696, 952
PleI GAGTC 2 cut(s) 447, 556
PpsI GAGTC 2 cut(s) 447, 556
Psp6I CCWGG 1 cut(s) 423
PspEI GGTNACC 1 cut(s) 646
PspGI CCWGG 1 cut(s) 423
PspN4I GGNNCC 1 cut(s) 865
PspPI GGNCC 1 cut(s) 279
PsuI RGATCY 1 cut(s) 462
PvuII CAGCTG 1 cut(s) 545
RsaI GTAC 2 cut(s) 145, 214
RsaNI GTAC 2 cut(s) 144, 213
RseI CAYNNNNRTG 2 cut(s) 252, 589
SaqAI TTAA 2 cut(s) 479, 573
SatI GCNGC 2 cut(s) 695, 951
Sau3AI GATC 9 cut(s) 19, 46, 264, 293, 355, 462, 493, 774, 938
Sau96I GGNCC 1 cut(s) 279
SchI GAGTC 2 cut(s) 447, 557
ScrFI CCNGG 1 cut(s) 425
SfaNI GCATC 4 cut(s) 103, 244, 322, 394
SmiMI CAYNNNNRTG 2 cut(s) 252, 589
SmlI CTYRAG 1 cut(s) 630
SmoI CTYRAG 1 cut(s) 630
SpeI ACTAGT 1 cut(s) 146
Sse9I AATT 7 cut(s) 106, 222, 272, 372, 563, 732, 959
SsiI CCGC 3 cut(s) 210, 474, 888
SspMI CTAG 4 cut(s) 147, 320, 378, 488
StyD4I CCNGG 1 cut(s) 423
StyI CCWWGG 2 cut(s) 741, 930
TaaI ACNGT 4 cut(s) 15, 230, 399, 978
TaiI ACGT 1 cut(s) 614
TaqI TCGA 4 cut(s) 292, 870, 941, 970
TasI AATT 7 cut(s) 106, 222, 272, 372, 563, 732, 959
TatI WGTACW 1 cut(s) 143
Tru1I TTAA 2 cut(s) 479, 573
Tru9I TTAA 2 cut(s) 479, 573
TscAI CASTG 3 cut(s) 20, 58, 540
TseFI GTSAC 2 cut(s) 646, 880
TseI GCWGC 2 cut(s) 694, 950
Tsp45I GTSAC 2 cut(s) 646, 880
TspDTI ATGAA 4 cut(s) 291, 300, 380, 570
TspRI CASTG 3 cut(s) 20, 58, 540
XcmI CCANNNNNNNNNTGG 1 cut(s) 105
XmnI GAANNNNTTC 1 cut(s) 513
XspI CTAG 4 cut(s) 147, 320, 378, 488
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.