Rorug05G0543500

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000538
Physical Location & Seq
Forward (+)
73147858 .. 73150573
2716 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0543500.1

Sequence Viewer

Length: 936 bp
ATGGAGAAGACGACGCCGTTCAAGAATCTCCTAAGCAGAGAGTACCGTGTCCATGAGAAGGAGGTGCGATCGGTGGCTTGGAACTTCACCGGAACCAAGCTCGCCTCGGGTTCTGAGGATCAGTCCGCTAGGGTTTGGCACATTGAGCCTCATGGAAATGGTAACTCTGTTGAATTGAAGGGGCACAGGGATAGTGTGGAGCAGCTGTGTTGGGATCCCAAGCATGCCGAGTTGGTTGCCACTGCCTCTATGGACAAAACTGTTCGTCTCTGGGATGATCGTACCGGGAAGTGTGTGCAGCTAGCGGAACTTAGTGGCCTGAACATTAACATTGCATATAAACCTGATGGCGAGCTCATAGCAGTTGGTGATACGAACAACGAATTGACAATTTTGGATGTTCGGACGTTTAAGCCAATTCACAAGAGGAAGTTCCATTACGAGGTAAATGAAATTGCTTGGAACACAACAAGTGATATTTTGTTCGTGACAACTGGAAAGGATGAGAAAGGCGTTGTTGAGGTGCTATCATACCCATCTCTTCAACCACTTGAAAGTATCATGGCTCATACAGCTGGTTGTCATTGCATTGCAATTGACCCATGTGGAAGATATTTTGCTGTTGGGAGTGCCGATTCCTTGGTCAGCCTATGGGATATCTCGGAGTTGCTCTGTGTGCGAACGTTCACAAAAATAAAATCGGCTGTGAGGACAATAAGCTTTAACCACAGTGGAGAGTATATTGCTTCTGGCAGTACAGATTGTTTCATTGACATATCAAATGTTCAAACTGGGCGTACAGTGCATCAAATTCCATGTGGGCCTGCCATGAACAGTGTTGACTGGAATCCTAAAAGCAATCTGCTTGCATATGCTGGGAAGGACAACATCAATGAAGGTATTGTGAGGATCTTCGGCTTCACAAGCACGGGCTAA
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

311

Amino Acids

34.49

Weight (kDa)

6.0

Isoelectric Point (pI)

27.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR5 PF25175 12 - 100 1.5e-16 WDR5 beta-propeller domain
WD40_Gbeta PF25391 12 - 138 4.9e-07 G protein beta WD-40 repeat protein
WD40_CDC20-Fz PF24807 12 - 100 1.1e-14 CDC20/Fizzy WD40 domain
Beta-prop_WDR36-Utp21_1st PF25171 13 - 166 2.8e-06 WDR36/Utp21 first beta-propeller
WDR55 PF24796 13 - 100 3.9e-08 WDR55
WD40_Prp19 PF24814 13 - 142 6.7e-19 Prp19 WD40 domain
WD40 PF00400 13 - 46 2.8e-07 WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1 PF24105 14 - 102 1.6e-11 CAF1B/HIR1 beta-propeller domain
Beta-prop_WDR3_1st PF25173 15 - 131 3.8e-18 WDR3 first beta-propeller domain
EIF3I PF24805 18 - 123 3.7e-09 EIF3I
Beta-prop_THOC3 PF25174 18 - 292 5.1e-111 THOC3 beta-propeller domain
WD40_WDHD1_1st PF24817 20 - 102 1.3e-11 WDHD1 first WD40 domain
Beta-prop_Aladin PF25460 20 - 166 8.6e-10 Aladin seven-bladed propeller
Beta-prop_TEP1_2nd PF25047 22 - 140 6.2e-09 TEP-1 second beta-propeller
WDR55 PF24796 57 - 167 5.3e-06 WDR55
WD40 PF00400 58 - 92 4.3e-07 WD domain, G-beta repeat
Beta-prop_EML_2 PF23414 69 - 165 3.3e-11 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR19_1st PF23389 69 - 221 9.9e-09 WDR19 first beta-propeller
ANAPC4_WD40 PF12894 110 - 156 5.7e-06 Anaphase-promoting complex subunit 4 WD40 domain
Beta-prop_WDR5 PF25175 111 - 295 5.8e-24 WDR5 beta-propeller domain
WD40_CDC20-Fz PF24807 111 - 292 2.2e-22 CDC20/Fizzy WD40 domain
EIF3I PF24805 138 - 249 7.2e-08 EIF3I
Beta-prop_EML_2 PF23414 139 - 290 4.6e-14 Echinoderm microtubule-associated protein second beta-propeller
WD40_Prp19 PF24814 148 - 295 2.1e-16 Prp19 WD40 domain
Beta-prop_WDR36-Utp21_2nd PF25168 149 - 297 9.6e-09 WDR36/Utp21 second beta-propeller domain
WD40_WDHD1_1st PF24817 165 - 297 1.2e-15 WDHD1 first WD40 domain
WD40 PF00400 182 - 219 1.7e-06 WD domain, G-beta repeat
WD40_Gbeta PF25391 186 - 298 1e-09 G protein beta WD-40 repeat protein
Beta-prop_WDR3_1st PF25173 187 - 296 1.5e-13 WDR3 first beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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)
AciI CCGC 2 cut(s) 126, 305
AclI AACGTT 1 cut(s) 683
AclWI GGATC 4 cut(s) 126, 209, 222, 917
AcsI RAATTY 1 cut(s) 810
AcyI GRCGYC 1 cut(s) 14
AfaI GTAC 4 cut(s) 44, 283, 757, 799
AfiI CCNNNNNNNGG 2 cut(s) 58, 442
AgsI TTSAA 6 cut(s) 22, 173, 178, 545, 554, 788
AluBI AGCT 6 cut(s) 100, 205, 301, 355, 575, 720
AluI AGCT 6 cut(s) 100, 205, 301, 355, 575, 720
Alw21I GWGCWC 1 cut(s) 357
Alw26I GTCTC 1 cut(s) 272
AlwI GGATC 4 cut(s) 126, 209, 222, 917
Ama87I CYCGRG 1 cut(s) 106
AoxI GGCC 2 cut(s) 316, 821
ApeKI GCWGC 2 cut(s) 202, 298
ApoI RAATTY 1 cut(s) 810
AspS9I GGNCC 1 cut(s) 821
AsuC2I CCSGG 1 cut(s) 286
AsuHPI GGTGA 2 cut(s) 79, 380
AsuNHI GCTAGC 1 cut(s) 301
AvaI CYCGRG 1 cut(s) 106
BaeGI GKGCMC 1 cut(s) 186
BamHI GGATCC 1 cut(s) 214
BanII GRGCYC 1 cut(s) 357
BarI GAAGNNNNNNTAC 2 cut(s) 422, 454
BbsI GAAGAC 1 cut(s) 14
Bbv12I GWGCWC 1 cut(s) 357
BbvI GCAGC 2 cut(s) 214, 310
BccI CCATC 2 cut(s) 341, 544
BcgI CGANNNNNNTGC 2 cut(s) 218, 252
BcnI CCSGG 1 cut(s) 286
BcoDI GTCTC 1 cut(s) 272
BfaI CTAG 2 cut(s) 129, 302
BisI GCNGC 2 cut(s) 203, 299
BlsI GCNGC 2 cut(s) 204, 300
Bme1390I CCNGG 1 cut(s) 286
BmeT110I CYCGRG 1 cut(s) 106
BmgT120I GGNCC 1 cut(s) 821
BmiI GGNNCC 2 cut(s) 94, 216
BmrFI CCNGG 1 cut(s) 286
BmrI ACTGGG 1 cut(s) 801
BmsI GCATC 1 cut(s) 814
BmtI GCTAGC 1 cut(s) 305
BmuI ACTGGG 1 cut(s) 801
BpiI GAAGAC 1 cut(s) 14
Bpu10I CCTNAGC 1 cut(s) 32
BpuMI CCSGG 1 cut(s) 286
BsaHI GRCGYC 1 cut(s) 14
BsaJI CCNNGG 2 cut(s) 105, 639
BsaWI WCCGGW 1 cut(s) 89
BsaXI ACNNNNNCTCC 2 cut(s) 191, 221
Bsc4I CCNNNNNNNGG 2 cut(s) 58, 442
Bse1I ACTGG 3 cut(s) 499, 796, 848
Bse3DI GCAATG 3 cut(s) 330, 583, 588
BseDI CCNNGG 2 cut(s) 105, 639
BseGI GGATG 3 cut(s) 280, 403, 508
BseLI CCNNNNNNNGG 2 cut(s) 58, 442
BseMI GCAATG 3 cut(s) 330, 583, 588
BseMII CTCAG 1 cut(s) 105
BseNI ACTGG 3 cut(s) 499, 796, 848
BseSI GKGCMC 1 cut(s) 186
BseXI GCAGC 2 cut(s) 214, 310
BseYI CCCAGC 1 cut(s) 875
BsgI GTGCAG 1 cut(s) 317
Bsh1285I CGRYCG 1 cut(s) 71
BshFI GGCC 2 cut(s) 318, 823
BsiEI CGRYCG 1 cut(s) 71
BsiHKAI GWGCWC 1 cut(s) 357
BsiHKCI CYCGRG 1 cut(s) 106
BsiSI CCGG 2 cut(s) 90, 285
BslI CCNNNNNNNGG 2 cut(s) 58, 442
BsmAI GTCTC 1 cut(s) 272
BsmBI CGTCTC 1 cut(s) 272
BsnI GGCC 2 cut(s) 318, 823
BsoBI CYCGRG 1 cut(s) 106
Bsp1286I GDGCHC 2 cut(s) 186, 357
Bsp143I GATC 5 cut(s) 68, 118, 214, 277, 909
BspACI CCGC 2 cut(s) 126, 305
BspANI GGCC 2 cut(s) 318, 823
BspCNI CTCAG 1 cut(s) 106
BspLI GGNNCC 2 cut(s) 94, 216
BspOI GCTAGC 1 cut(s) 305
BspPI GGATC 4 cut(s) 126, 209, 222, 917
BsrDI GCAATG 3 cut(s) 330, 583, 588
BsrI ACTGG 3 cut(s) 499, 796, 848
BssECI CCNNGG 2 cut(s) 105, 639
BssMI GATC 5 cut(s) 68, 118, 214, 277, 909
BssNI GRCGYC 1 cut(s) 14
BssT1I CCWWGG 1 cut(s) 639
Bst4CI ACNGT 5 cut(s) 47, 262, 731, 802, 836
Bst6I CTCTTC 1 cut(s) 546
BstACI GRCGYC 1 cut(s) 14
BstC8I GCNNGC 6 cut(s) 102, 225, 303, 353, 825, 867
BstDEI CTNAG 3 cut(s) 32, 114, 311
BstF5I GGATG 3 cut(s) 280, 403, 508
BstKTI GATC 5 cut(s) 71, 121, 217, 280, 912
BstMAI GTCTC 1 cut(s) 272
BstMBI GATC 5 cut(s) 68, 118, 214, 277, 909
BstMCI CGRYCG 1 cut(s) 71
BstMWI GCNNNNNNNGC 5 cut(s) 145, 572, 676, 802, 924
BstNSI RCATGY 1 cut(s) 227
BstSCI CCNGG 1 cut(s) 284
BstSLI GKGCMC 1 cut(s) 186
BstV1I GCAGC 2 cut(s) 214, 310
BstV2I GAAGAC 1 cut(s) 14
BstX2I RGATCY 2 cut(s) 214, 909
BstYI RGATCY 2 cut(s) 214, 909
BsuRI GGCC 2 cut(s) 318, 823
BtsCI GGATG 3 cut(s) 280, 403, 508
BtsI GCAGTG 1 cut(s) 240
BtsIMutI CAGTG 4 cut(s) 240, 736, 807, 841
Cac8I GCNNGC 6 cut(s) 102, 225, 303, 353, 825, 867
Cfr13I GGNCC 1 cut(s) 821
CseI GACGC 1 cut(s) 22
Csp6I GTAC 4 cut(s) 43, 282, 756, 798
CviAII CATG 7 cut(s) 53, 152, 224, 562, 603, 816, 829
CviQI GTAC 4 cut(s) 43, 282, 756, 798
DdeI CTNAG 3 cut(s) 32, 114, 311
DpnI GATC 5 cut(s) 70, 120, 216, 279, 911
DpnII GATC 5 cut(s) 68, 118, 214, 277, 909
Eam1104I CTCTTC 1 cut(s) 546
EarI CTCTTC 1 cut(s) 546
Ecl136II GAGCTC 1 cut(s) 355
Eco130I CCWWGG 1 cut(s) 639
Eco24I GRGCYC 1 cut(s) 357
Eco32I GATATC 1 cut(s) 658
Eco53kI GAGCTC 1 cut(s) 355
Eco88I CYCGRG 1 cut(s) 106
EcoICRI GAGCTC 1 cut(s) 355
EcoRV GATATC 1 cut(s) 658
EcoT14I CCWWGG 1 cut(s) 639
EcoT38I GRGCYC 1 cut(s) 357
ErhI CCWWGG 1 cut(s) 639
Esp3I CGTCTC 1 cut(s) 272
FaeI CATG 7 cut(s) 56, 155, 227, 565, 606, 819, 832
FatI CATG 7 cut(s) 52, 151, 223, 561, 602, 815, 828
FauNDI CATATG 1 cut(s) 871
Fnu4HI GCNGC 2 cut(s) 203, 299
FokI GGATG 3 cut(s) 287, 410, 515
FriOI GRGCYC 1 cut(s) 357
Fsp4HI GCNGC 2 cut(s) 203, 299
FspBI CTAG 2 cut(s) 129, 302
GluI GCNGC 2 cut(s) 203, 299
GsaI CCCAGC 1 cut(s) 879
HaeIII GGCC 2 cut(s) 318, 823
HapII CCGG 2 cut(s) 90, 285
HgaI GACGC 1 cut(s) 22
Hin1I GRCGYC 1 cut(s) 14
Hin1II CATG 7 cut(s) 56, 155, 227, 565, 606, 819, 832
HincII GTYRAC 1 cut(s) 841
HindII GTYRAC 1 cut(s) 841
HindIII AAGCTT 1 cut(s) 718
HinfI GANTC 3 cut(s) 25, 635, 847
HpaII CCGG 2 cut(s) 90, 285
HphI GGTGA 2 cut(s) 79, 380
Hpy166II GTNNAC 2 cut(s) 687, 841
Hpy188I TCNGA 3 cut(s) 115, 405, 664
Hpy188III TCNNGA 2 cut(s) 22, 487
Hpy8I GTNNAC 2 cut(s) 687, 841
Hpy99I CGWCG 1 cut(s) 16
HpyAV CCTTC 4 cut(s) 52, 172, 874, 890
HpyCH4III ACNGT 5 cut(s) 47, 262, 731, 802, 836
HpyCH4IV ACGT 2 cut(s) 407, 683
HpyCH4V TGCA 6 cut(s) 298, 335, 588, 593, 805, 869
HpyF10VI GCNNNNNNNGC 5 cut(s) 145, 572, 676, 802, 924
HpyF3I CTNAG 3 cut(s) 32, 114, 311
HpySE526I ACGT 2 cut(s) 407, 683
Hsp92I GRCGYC 1 cut(s) 14
Hsp92II CATG 7 cut(s) 56, 155, 227, 565, 606, 819, 832
Kzo9I GATC 5 cut(s) 68, 118, 214, 277, 909
LmnI GCTCC 1 cut(s) 199
Lsp1109I GCAGC 2 cut(s) 214, 310
LweI GCATC 1 cut(s) 814
MaeI CTAG 2 cut(s) 129, 302
MaeII ACGT 2 cut(s) 407, 683
MaeIII GTNAC 2 cut(s) 161, 487
MalI GATC 5 cut(s) 70, 120, 216, 279, 911
MboI GATC 5 cut(s) 68, 118, 214, 277, 909
MboII GAAGA 4 cut(s) 19, 533, 621, 904
MfeI CAATTG 1 cut(s) 594
MflI RGATCY 2 cut(s) 214, 909
MhlI GDGCHC 2 cut(s) 186, 357
MluCI AATT 7 cut(s) 173, 383, 390, 417, 453, 594, 810
MseI TTAA 3 cut(s) 327, 411, 723
MslI CAYNNNNRTG 1 cut(s) 156
MspA1I CMGCKG 2 cut(s) 205, 575
MspI CCGG 2 cut(s) 90, 285
MspR9I CCNGG 1 cut(s) 286
MunI CAATTG 1 cut(s) 594
MwoI GCNNNNNNNGC 5 cut(s) 145, 572, 676, 802, 924
NciI CCSGG 1 cut(s) 286
NdeI CATATG 1 cut(s) 871
NdeII GATC 5 cut(s) 68, 118, 214, 277, 909
NheI GCTAGC 1 cut(s) 301
NlaIII CATG 7 cut(s) 56, 155, 227, 565, 606, 819, 832
NlaIV GGNNCC 2 cut(s) 94, 216
NmeAIII GCCGAG 1 cut(s) 253
NmuCI GTSAC 1 cut(s) 487
NspI RCATGY 1 cut(s) 227
PaeI GCATGC 1 cut(s) 227
PfeI GAWTC 3 cut(s) 25, 635, 847
PkrI GCNGC 2 cut(s) 204, 300
Ple19I CGATCG 1 cut(s) 71
Psp124BI GAGCTC 1 cut(s) 357
Psp1406I AACGTT 1 cut(s) 683
PspFI CCCAGC 1 cut(s) 875
PspN4I GGNNCC 2 cut(s) 94, 216
PspPI GGNCC 1 cut(s) 821
PsuI RGATCY 2 cut(s) 214, 909
PvuI CGATCG 1 cut(s) 71
PvuII CAGCTG 2 cut(s) 205, 575
RsaI GTAC 4 cut(s) 44, 283, 757, 799
RsaNI GTAC 4 cut(s) 43, 282, 756, 798
RseI CAYNNNNRTG 1 cut(s) 156
SacI GAGCTC 1 cut(s) 357
SaqAI TTAA 3 cut(s) 327, 411, 723
SatI GCNGC 2 cut(s) 203, 299
Sau3AI GATC 5 cut(s) 68, 118, 214, 277, 909
Sau96I GGNCC 1 cut(s) 821
ScrFI CCNGG 1 cut(s) 286
SduI GDGCHC 2 cut(s) 186, 357
SfaNI GCATC 1 cut(s) 814
SmiMI CAYNNNNRTG 1 cut(s) 156
SphI GCATGC 1 cut(s) 227
Sse9I AATT 7 cut(s) 173, 383, 390, 417, 453, 594, 810
SsiI CCGC 2 cut(s) 126, 305
SspMI CTAG 2 cut(s) 129, 302
SstI GAGCTC 1 cut(s) 357
StyD4I CCNGG 1 cut(s) 284
StyI CCWWGG 1 cut(s) 639
TaaI ACNGT 5 cut(s) 47, 262, 731, 802, 836
TaiI ACGT 2 cut(s) 410, 686
TasI AATT 7 cut(s) 173, 383, 390, 417, 453, 594, 810
TatI WGTACW 1 cut(s) 755
TfiI GAWTC 3 cut(s) 25, 635, 847
Tru1I TTAA 3 cut(s) 327, 411, 723
Tru9I TTAA 3 cut(s) 327, 411, 723
TscAI CASTG 4 cut(s) 247, 736, 807, 841
TseFI GTSAC 1 cut(s) 487
TseI GCWGC 2 cut(s) 202, 298
Tsp45I GTSAC 1 cut(s) 487
TspDTI ATGAA 4 cut(s) 465, 757, 845, 909
TspRI CASTG 4 cut(s) 247, 736, 807, 841
XapI RAATTY 1 cut(s) 810
XceI RCATGY 1 cut(s) 227
XcmI CCANNNNNNNNNTGG 1 cut(s) 247
XspI CTAG 2 cut(s) 129, 302
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.