Rh6DG045500

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000538
Physical Location & Seq
Reverse (-)
4804481 .. 4806950
2470 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG045500.1

Sequence Viewer

Length: 1188 bp
ATGAACAGTATTAATAGAGAAGAGATAAGACGCTGGTGCTTGGAAACACGTACTTTGCAACCAGTCGACTCAGGCAGACCTTCCTCAATGGCAAGCAAAGCTGATCACTTTTTCTCTTCCCCTTTGGTCAACTTTCAAACATGGTGCGATCACATGGCTTGGCTGTCCTCTGATATCATTGACATTCCCTACCCTAATACTCCCTGCAGGAGATGCGGGCACCCAAATGAAAACTGGTTTTGTTTATGCTGTAAGACTGTCCTTTGTGGTCGTCATGACAACATGCACATGATTCAACATTACGAGCAGACAAATCATTCTCTTGTAATCAGCTGCAGCAATCTATTAGTTTGGTGTTACTCCTGCCATTCTTTTATAGATCATAAAGTGATTCCGCAACTGAAGGCTGCACTGTTATTGTCAAATGCCTCCAAGGATCGTTCCTCATCAACCAAGCTAGAGAACCTCGATGGTCTGATTGCTGATGTAGATGATCTCATCTCTACATTTTCTAGCTTTGATCTTCATCAACTGGATACTCACTTCTGTGATGAGCTTGCAATGGCCAAGGAGGGACTCCAAAAGATATTTGACTGTGACTTGGAAGCTTTAGCTGATCCCAAAGTCCAAGAGGAGTTCCTTCCTCATTCAGCCACACTTATTTCTGATGATTCTTGCCCAATAAACTTGAAGGTTAAACTTTTATCTTTCCAATCTAAACTCTCAGAGGAAATGTCTGCTTTCGTGGAAGCTCAACATGAGTTGAATAAAGTGTCAGACCTATCATCTTCACTTGCTGGGCAAAAGTTTGTGCTTGAATCGACCACTTCAAAGTATGCCGAAGTGAAAGCACTATTTCTTGCAGCAGACAAGAAACATGCCAAACTTACTGCCAAGATCAATGCTGCGTCGAAGGCTGGAATTGAATTGTTTGAAGATTTAGCCATTGTTCGGATGCGAAGGGCTGAGTTTGAAGAGAAATTGGGTACCATTGAGGGAGTAATTACCACTGGTAGAGATAGATTTGTCTCAGACTCTTCGAAGCTTTCTACAATAAAGGGATTGACCAATGCAGCTACCCTTTTAGTCACTCGACGAAAGTCAGCCTGGAATAGCTTAAGGATTACTTACTCAAATTTTGCATCACTTGGTCTGCATGATGAGGAAACTTATTTGGTGGGCTTCTAG
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

395

Amino Acids

44.37

Weight (kDa)

5.93

Isoelectric Point (pI)

44.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 69 - 129 1.6e-16 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)
Acc65I GGTACC 1 cut(s) 986
AccB1I GGYRCC 2 cut(s) 219, 986
AccI GTMKAC 1 cut(s) 66
AciI CCGC 2 cut(s) 216, 395
AclWI GGATC 2 cut(s) 444, 611
AcoI YGGCCR 1 cut(s) 564
AcsI RAATTY 1 cut(s) 1135
AcuI CTGAAG 1 cut(s) 422
AfaI GTAC 2 cut(s) 52, 988
AfiI CCNNNNNNNGG 1 cut(s) 951
AflII CTTAAG 1 cut(s) 1117
AflIII ACRYGT 1 cut(s) 47
AgsI TTSAA 9 cut(s) 137, 296, 691, 766, 818, 831, 926, 935, 974
AjnI CCWGG 1 cut(s) 1106
AleI CACNNNNGTG 1 cut(s) 546
Alw26I GTCTC 1 cut(s) 1033
AlwI GGATC 2 cut(s) 444, 611
AoxI GGCC 1 cut(s) 564
ApeKI GCWGC 6 cut(s) 333, 336, 407, 863, 905, 1073
ApoI RAATTY 1 cut(s) 1135
AseI ATTAAT 1 cut(s) 12
Asp718I GGTACC 1 cut(s) 986
AsuII TTCGAA 1 cut(s) 1040
BaeGI GKGCMC 1 cut(s) 222
BalI TGGCCA 1 cut(s) 566
BanI GGYRCC 2 cut(s) 219, 986
BbvI GCAGC 6 cut(s) 320, 348, 394, 875, 892, 1085
BccI CCATC 1 cut(s) 464
BciT130I CCWGG 1 cut(s) 1108
BciVI GTATCC 1 cut(s) 529
BclI TGATCA 1 cut(s) 103
BcoDI GTCTC 1 cut(s) 1033
BfaI CTAG 3 cut(s) 458, 513, 1186
BfmI CTRYAG 2 cut(s) 205, 334
BfrI CTTAAG 1 cut(s) 1117
BfuI GTATCC 1 cut(s) 529
BisI GCNGC 6 cut(s) 334, 337, 408, 864, 906, 1074
BlsI GCNGC 6 cut(s) 335, 338, 409, 865, 907, 1075
Bme1390I CCNGG 1 cut(s) 1108
BmiI GGNNCC 2 cut(s) 221, 988
BmrFI CCNGG 1 cut(s) 1108
BmsI GCATC 3 cut(s) 203, 945, 1151
BoxI GACNNNNGTC 1 cut(s) 1099
Bpu14I TTCGAA 1 cut(s) 1040
BsaAI YACGTR 1 cut(s) 50
BsaBI GATNNNNATC 1 cut(s) 525
BsaJI CCNNGG 2 cut(s) 432, 567
Bsc4I CCNNNNNNNGG 1 cut(s) 951
Bse1I ACTGG 4 cut(s) 62, 239, 537, 1015
Bse3DI GCAATG 1 cut(s) 567
Bse8I GATNNNNATC 1 cut(s) 525
BseBI CCWGG 1 cut(s) 1108
BseDI CCNNGG 2 cut(s) 432, 567
BseGI GGATG 1 cut(s) 960
BseJI GATNNNNATC 1 cut(s) 525
BseLI CCNNNNNNNGG 1 cut(s) 951
BseMI GCAATG 1 cut(s) 567
BseMII CTCAG 4 cut(s) 84, 738, 957, 1044
BseNI ACTGG 4 cut(s) 62, 239, 537, 1015
BseRI GAGGAG 1 cut(s) 647
BseSI GKGCMC 1 cut(s) 222
BseXI GCAGC 6 cut(s) 320, 348, 394, 875, 892, 1085
BseYI CCCAGC 1 cut(s) 797
BsgI GTGCAG 1 cut(s) 393
BshFI GGCC 1 cut(s) 566
BshNI GGYRCC 2 cut(s) 219, 986
BslFI GGGAC 1 cut(s) 588
BslI CCNNNNNNNGG 1 cut(s) 951
BsmAI GTCTC 1 cut(s) 1033
BsmFI GGGAC 1 cut(s) 588
BsnI GGCC 1 cut(s) 566
Bsp119I TTCGAA 1 cut(s) 1040
Bsp1286I GDGCHC 1 cut(s) 222
Bsp143I GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
BspACI CCGC 2 cut(s) 216, 395
BspANI GGCC 1 cut(s) 566
BspCNI CTCAG 4 cut(s) 83, 737, 958, 1043
BspHI TCATGA 1 cut(s) 274
BspLI GGNNCC 2 cut(s) 221, 988
BspMAI CTGCAG 2 cut(s) 209, 338
BspPI GGATC 2 cut(s) 444, 611
BspT104I TTCGAA 1 cut(s) 1040
BspT107I GGYRCC 2 cut(s) 219, 986
BspTI CTTAAG 1 cut(s) 1117
BsrDI GCAATG 1 cut(s) 567
BsrI ACTGG 4 cut(s) 62, 239, 537, 1015
BssECI CCNNGG 2 cut(s) 432, 567
BssMI GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
BssT1I CCWWGG 2 cut(s) 432, 567
Bst2UI CCWGG 1 cut(s) 1108
Bst4CI ACNGT 4 cut(s) 8, 259, 414, 596
Bst6I CTCTTC 4 cut(s) 15, 121, 969, 1042
BstAFI CTTAAG 1 cut(s) 1117
BstAPI GCANNNNNTGC 1 cut(s) 213
BstBAI YACGTR 1 cut(s) 50
BstBI TTCGAA 1 cut(s) 1040
BstC8I GCNNGC 3 cut(s) 94, 218, 558
BstDEI CTNAG 4 cut(s) 70, 724, 966, 1030
BstF5I GGATG 1 cut(s) 960
BstKTI GATC 8 cut(s) 106, 151, 382, 439, 496, 523, 619, 900
BstMAI GTCTC 1 cut(s) 1033
BstMBI GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
BstMWI GCNNNNNNNGC 3 cut(s) 98, 213, 914
BstNI CCWGG 1 cut(s) 1108
BstNSI RCATGY 2 cut(s) 286, 881
BstPAI GACNNNNGTC 1 cut(s) 1099
BstSCI CCNGG 1 cut(s) 1106
BstSFI CTRYAG 2 cut(s) 205, 334
BstSLI GKGCMC 1 cut(s) 222
BstV1I GCAGC 6 cut(s) 320, 348, 394, 875, 892, 1085
BsuI GTATCC 1 cut(s) 529
BsuRI GGCC 1 cut(s) 566
BtsCI GGATG 1 cut(s) 960
BtsIMutI CAGTG 2 cut(s) 410, 1008
Cac8I GCNNGC 3 cut(s) 94, 218, 558
CciI TCATGA 1 cut(s) 274
CseI GACGC 2 cut(s) 39, 897
Csp6I GTAC 2 cut(s) 51, 987
CviAII CATG 8 cut(s) 141, 154, 275, 283, 289, 758, 878, 1157
CviQI GTAC 2 cut(s) 51, 987
DdeI CTNAG 4 cut(s) 70, 724, 966, 1030
DpnI GATC 8 cut(s) 105, 150, 381, 438, 495, 522, 618, 899
DpnII GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
EaeI YGGCCR 1 cut(s) 564
Eam1104I CTCTTC 4 cut(s) 15, 121, 969, 1042
EarI CTCTTC 4 cut(s) 15, 121, 969, 1042
Eco130I CCWWGG 2 cut(s) 432, 567
Eco32I GATATC 1 cut(s) 175
Eco57I CTGAAG 1 cut(s) 422
EcoRII CCWGG 1 cut(s) 1106
EcoRV GATATC 1 cut(s) 175
EcoT14I CCWWGG 2 cut(s) 432, 567
ErhI CCWWGG 2 cut(s) 432, 567
FaeI CATG 8 cut(s) 144, 157, 278, 286, 292, 761, 881, 1160
FalI AAGNNNNNCTT 2 cut(s) 1111, 1143
FaqI GGGAC 1 cut(s) 588
FatI CATG 8 cut(s) 140, 153, 274, 282, 288, 757, 877, 1156
FauI CCCGC 1 cut(s) 209
FbaI TGATCA 1 cut(s) 103
FblI GTMKAC 1 cut(s) 66
Fnu4HI GCNGC 6 cut(s) 334, 337, 408, 864, 906, 1074
FokI GGATG 1 cut(s) 967
Fsp4HI GCNGC 6 cut(s) 334, 337, 408, 864, 906, 1074
FspBI CTAG 3 cut(s) 458, 513, 1186
GluI GCNGC 6 cut(s) 334, 337, 408, 864, 906, 1074
GsaI CCCAGC 1 cut(s) 801
HaeIII GGCC 1 cut(s) 566
HgaI GACGC 2 cut(s) 39, 897
Hin1II CATG 8 cut(s) 144, 157, 278, 286, 292, 761, 881, 1160
HincII GTYRAC 2 cut(s) 67, 130
HindII GTYRAC 2 cut(s) 67, 130
HindIII AAGCTT 2 cut(s) 606, 1043
HinfI GANTC 7 cut(s) 68, 292, 391, 576, 671, 818, 1034
Hpy166II GTNNAC 2 cut(s) 67, 130
Hpy188I TCNGA 7 cut(s) 172, 477, 667, 727, 778, 954, 1033
Hpy188III TCNNGA 1 cut(s) 275
Hpy8I GTNNAC 2 cut(s) 67, 130
Hpy99I CGWCG 2 cut(s) 913, 1098
HpyAV CCTTC 6 cut(s) 90, 397, 650, 685, 907, 954
HpyCH4III ACNGT 4 cut(s) 8, 259, 414, 596
HpyCH4IV ACGT 1 cut(s) 49
HpyF10VI GCNNNNNNNGC 3 cut(s) 98, 213, 914
HpyF3I CTNAG 4 cut(s) 70, 724, 966, 1030
HpySE526I ACGT 1 cut(s) 49
Hsp92II CATG 8 cut(s) 144, 157, 278, 286, 292, 761, 881, 1160
KpnI GGTACC 1 cut(s) 990
Ksp22I TGATCA 1 cut(s) 103
Kzo9I GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
Lsp1109I GCAGC 6 cut(s) 320, 348, 394, 875, 892, 1085
LweI GCATC 3 cut(s) 203, 945, 1151
MaeI CTAG 3 cut(s) 458, 513, 1186
MaeII ACGT 1 cut(s) 49
MaeIII GTNAC 3 cut(s) 356, 596, 1087
MalI GATC 8 cut(s) 105, 150, 381, 438, 495, 522, 618, 899
MboI GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
MboII GAAGA 7 cut(s) 32, 108, 515, 780, 947, 986, 1029
MhlI GDGCHC 1 cut(s) 222
MlsI TGGCCA 1 cut(s) 566
MluCI AATT 5 cut(s) 921, 926, 980, 1002, 1135
MluNI TGGCCA 1 cut(s) 566
MlyI GAGTC 3 cut(s) 62, 570, 1028
Mox20I TGGCCA 1 cut(s) 566
MscI TGGCCA 1 cut(s) 566
MseI TTAA 3 cut(s) 12, 696, 1118
MslI CAYNNNNRTG 3 cut(s) 225, 287, 546
Msp20I TGGCCA 1 cut(s) 566
MspA1I CMGCKG 1 cut(s) 333
MspCI CTTAAG 1 cut(s) 1117
MspR9I CCNGG 1 cut(s) 1108
MvaI CCWGG 1 cut(s) 1108
MwoI GCNNNNNNNGC 3 cut(s) 98, 213, 914
NdeII GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
NlaIII CATG 8 cut(s) 144, 157, 278, 286, 292, 761, 881, 1160
NlaIV GGNNCC 2 cut(s) 221, 988
NmuCI GTSAC 2 cut(s) 596, 1087
NspI RCATGY 2 cut(s) 286, 881
NspV TTCGAA 1 cut(s) 1040
OliI CACNNNNGTG 1 cut(s) 546
PagI TCATGA 1 cut(s) 274
PfeI GAWTC 4 cut(s) 292, 391, 671, 818
PkrI GCNGC 6 cut(s) 335, 338, 409, 865, 907, 1075
PleI GAGTC 3 cut(s) 62, 570, 1028
PpsI GAGTC 3 cut(s) 62, 570, 1028
Ppu21I YACGTR 1 cut(s) 50
PshAI GACNNNNGTC 1 cut(s) 1099
PshBI ATTAAT 1 cut(s) 12
Psp6I CCWGG 1 cut(s) 1106
PspFI CCCAGC 1 cut(s) 797
PspGI CCWGG 1 cut(s) 1106
PspN4I GGNNCC 2 cut(s) 221, 988
PstI CTGCAG 2 cut(s) 209, 338
PvuII CAGCTG 1 cut(s) 333
RsaI GTAC 2 cut(s) 52, 988
RsaNI GTAC 2 cut(s) 51, 987
RseI CAYNNNNRTG 3 cut(s) 225, 287, 546
SalI GTCGAC 1 cut(s) 65
SaqAI TTAA 3 cut(s) 12, 696, 1118
SatI GCNGC 6 cut(s) 334, 337, 408, 864, 906, 1074
Sau3AI GATC 8 cut(s) 103, 148, 379, 436, 493, 520, 616, 897
SbfI CCTGCAGG 1 cut(s) 209
SchI GAGTC 3 cut(s) 62, 570, 1028
ScrFI CCNGG 1 cut(s) 1108
SdaI CCTGCAGG 1 cut(s) 209
SduI GDGCHC 1 cut(s) 222
SfaNI GCATC 3 cut(s) 203, 945, 1151
SfcI CTRYAG 2 cut(s) 205, 334
SfuI TTCGAA 1 cut(s) 1040
SmiMI CAYNNNNRTG 3 cut(s) 225, 287, 546
SmlI CTYRAG 1 cut(s) 1117
SmoI CTYRAG 1 cut(s) 1117
Sse8387I CCTGCAGG 1 cut(s) 209
Sse9I AATT 5 cut(s) 921, 926, 980, 1002, 1135
SsiI CCGC 2 cut(s) 216, 395
SspMI CTAG 3 cut(s) 458, 513, 1186
StyD4I CCNGG 1 cut(s) 1106
StyI CCWWGG 2 cut(s) 432, 567
TaaI ACNGT 4 cut(s) 8, 259, 414, 596
TaiI ACGT 1 cut(s) 52
TaqI TCGA 6 cut(s) 66, 468, 821, 911, 1040, 1093
TasI AATT 5 cut(s) 921, 926, 980, 1002, 1135
TfiI GAWTC 4 cut(s) 292, 391, 671, 818
Tru1I TTAA 3 cut(s) 12, 696, 1118
Tru9I TTAA 3 cut(s) 12, 696, 1118
TscAI CASTG 2 cut(s) 417, 1015
TseFI GTSAC 2 cut(s) 596, 1087
TseI GCWGC 6 cut(s) 333, 336, 407, 863, 905, 1073
Tsp45I GTSAC 2 cut(s) 596, 1087
TspDTI ATGAA 3 cut(s) 17, 243, 515
TspRI CASTG 2 cut(s) 417, 1015
Vha464I CTTAAG 1 cut(s) 1117
VspI ATTAAT 1 cut(s) 12
XapI RAATTY 1 cut(s) 1135
XceI RCATGY 2 cut(s) 286, 881
XcmI CCANNNNNNNNNTGG 1 cut(s) 231
XmiI GTMKAC 1 cut(s) 66
XspI CTAG 3 cut(s) 458, 513, 1186
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.