Rroxscaffold_7G00211990

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000538
Physical Location & Seq
Forward (+)
62431565 .. 62433763
2199 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00211990.1

Sequence Viewer

Length: 846 bp
ATGAGCCAGAGCCAGACACAATGTCCTCACCACCACGCTGTCGTTTCCTGTGATCTCACTGGCGTTCCCAGCCCTGACACTCCCTGCAAAAGATGTCAGCATCCAAAAGAGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTAGTAGTAGTGTGTATGGACATTTCATTCAGCATTATCAGGAGACAAAGCATTGTCTTTCTGTCAACTGCAGTAACAATTTAATTTACTGTTACTCCTGCCGTAAATTTCTAGATGCGGAAGTGATCCAAAAATTATGGGCCAAGGGTCGATCATCTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGATCTCTTGTCTAAGCCAATTCCTAGTATCAATGTTCATCCACAGTTGGATGCTCAGTCGTTTGGAGGCCAGGATGAGCTTGCATTGGCTAAGGAGGGACTCCGGAAGATCTTTGATTGCGGGTTAAAGGCTCTAGCTGATCCCAAAGTGCAAGAAGAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCTGAGTCATGCCCCTCAGAATTGAAAGTTAAACTTTCATCATTCAGGTGCAATCTTTCCGAGGAAACGTCTGCTTTCGTCAAAGCTCAAGATGAGTTGAAGGTGGCCTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTGGTGCTGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTCGCCTCGGGAGGAGAAAGTTGCCGGCTTCAAGGCCATGATCAAAGAGTTGGAAGAACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACAGAAGAGAGCAACAGGGCAAAGATTGA
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

281

Amino Acids

31.31

Weight (kDa)

7.5

Isoelectric Point (pI)

45.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 29 - 87 2.2e-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
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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)
AccIII TCCGGA 1 cut(s) 450
AciI CCGC 2 cut(s) 263, 468
AclWI GGATC 2 cut(s) 265, 482
AcsI RAATTY 1 cut(s) 251
AgsI TTSAA 4 cut(s) 562, 637, 702, 761
AhdI GACNNNNNGTC 1 cut(s) 21
AjnI CCWGG 1 cut(s) 417
AluBI AGCT 6 cut(s) 313, 427, 485, 539, 623, 807
AluI AGCT 6 cut(s) 313, 427, 485, 539, 623, 807
Alw26I GTCTC 1 cut(s) 182
AlwI GGATC 2 cut(s) 265, 482
Ama87I CYCGRG 1 cut(s) 736
Aor13HI TCCGGA 1 cut(s) 450
AoxI GGCC 4 cut(s) 285, 415, 642, 763
ApeKI GCWGC 1 cut(s) 688
ApoI RAATTY 1 cut(s) 251
Asp700I GAANNNNTTC 1 cut(s) 507
AspS9I GGNCC 1 cut(s) 285
AsuHPI GGTGA 2 cut(s) 20, 727
AvaI CYCGRG 1 cut(s) 736
BbvI GCAGC 1 cut(s) 675
BceAI ACGGC 1 cut(s) 231
BciT130I CCWGG 1 cut(s) 419
BclI TGATCA 1 cut(s) 769
BcoDI GTCTC 1 cut(s) 182
BfaI CTAG 4 cut(s) 257, 314, 372, 482
BfmI CTRYAG 2 cut(s) 145, 214
BglII AGATCT 1 cut(s) 456
BisI GCNGC 1 cut(s) 689
BlsI GCNGC 1 cut(s) 690
Bme1390I CCNGG 1 cut(s) 419
BmeRI GACNNNNNGTC 1 cut(s) 21
BmeT110I CYCGRG 1 cut(s) 736
BmgT120I GGNCC 1 cut(s) 285
BmrFI CCNGG 1 cut(s) 419
BmsI GCATC 4 cut(s) 109, 250, 316, 388
Bpu10I CCTNAGC 1 cut(s) 438
BpuEI CTTGAG 1 cut(s) 609
BsaJI CCNNGG 3 cut(s) 288, 597, 735
BsaWI WCCGGW 1 cut(s) 450
BsaXI ACNNNNNCTCC 2 cut(s) 224, 254
Bse118I RCCGGY 1 cut(s) 753
Bse1I ACTGG 1 cut(s) 64
Bse3DI GCAATG 1 cut(s) 336
BseAI TCCGGA 1 cut(s) 450
BseBI CCWGG 1 cut(s) 419
BseDI CCNNGG 3 cut(s) 288, 597, 735
BseGI GGATG 5 cut(s) 100, 305, 385, 403, 427
BseMI GCAATG 1 cut(s) 336
BseMII CTCAG 6 cut(s) 416, 531, 534, 567, 660, 683
BseNI ACTGG 1 cut(s) 64
BseRI GAGGAG 1 cut(s) 756
BseXI GCAGC 1 cut(s) 675
BseYI CCCAGC 1 cut(s) 68
BshFI GGCC 4 cut(s) 287, 417, 644, 765
BsiHKCI CYCGRG 1 cut(s) 736
BsiSI CCGG 2 cut(s) 451, 754
BslFI GGGAC 1 cut(s) 459
BsmAI GTCTC 1 cut(s) 182
BsmFI GGGAC 1 cut(s) 459
BsnI GGCC 4 cut(s) 287, 417, 644, 765
BsoBI CYCGRG 1 cut(s) 736
Bsp13I TCCGGA 1 cut(s) 450
Bsp143I GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
BspACI CCGC 2 cut(s) 263, 468
BspANI GGCC 4 cut(s) 287, 417, 644, 765
BspCNI CTCAG 6 cut(s) 415, 532, 533, 566, 659, 682
BspEI TCCGGA 1 cut(s) 450
BspMAI CTGCAG 1 cut(s) 218
BspPI GGATC 2 cut(s) 265, 482
BsrDI GCAATG 1 cut(s) 336
BsrFI RCCGGY 1 cut(s) 753
BsrI ACTGG 1 cut(s) 64
BssAI RCCGGY 1 cut(s) 753
BssECI CCNNGG 3 cut(s) 288, 597, 735
BssMI GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
BssT1I CCWWGG 1 cut(s) 288
Bst2UI CCWGG 1 cut(s) 419
Bst4CI ACNGT 2 cut(s) 236, 393
Bst6I CTCTTC 2 cut(s) 498, 817
BstC8I GCNNGC 2 cut(s) 429, 755
BstDEI CTNAG 8 cut(s) 360, 402, 438, 520, 540, 553, 646, 669
BstF5I GGATG 5 cut(s) 100, 305, 385, 403, 427
BstKTI GATC 7 cut(s) 55, 273, 299, 352, 459, 490, 772
BstMAI GTCTC 1 cut(s) 182
BstMBI GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
BstMWI GCNNNNNNNGC 2 cut(s) 69, 813
BstNI CCWGG 1 cut(s) 419
BstSCI CCNGG 1 cut(s) 417
BstSFI CTRYAG 2 cut(s) 145, 214
BstV1I GCAGC 1 cut(s) 675
BstX2I RGATCY 1 cut(s) 456
BstYI RGATCY 1 cut(s) 456
BsuRI GGCC 4 cut(s) 287, 417, 644, 765
BtsCI GGATG 5 cut(s) 100, 305, 385, 403, 427
BtsI GCAGTG 1 cut(s) 527
BtsIMutI CAGTG 2 cut(s) 57, 527
Cac8I GCNNGC 2 cut(s) 429, 755
Cfr10I RCCGGY 1 cut(s) 753
Cfr13I GGNCC 1 cut(s) 285
CviAII CATG 2 cut(s) 546, 767
DdeI CTNAG 8 cut(s) 360, 402, 438, 520, 540, 553, 646, 669
DpnI GATC 7 cut(s) 54, 272, 298, 351, 458, 489, 771
DpnII GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
DriI GACNNNNNGTC 1 cut(s) 21
Eam1104I CTCTTC 2 cut(s) 498, 817
Eam1105I GACNNNNNGTC 1 cut(s) 21
EarI CTCTTC 2 cut(s) 498, 817
Eco130I CCWWGG 1 cut(s) 288
Eco88I CYCGRG 1 cut(s) 736
EcoRII CCWGG 1 cut(s) 417
EcoT14I CCWWGG 1 cut(s) 288
ErhI CCWWGG 1 cut(s) 288
FaeI CATG 2 cut(s) 549, 770
FaiI YATR 5 cut(s) 162, 283, 547, 708, 768
FalI AAGNNNNNCTT 4 cut(s) 125, 157, 555, 587
FaqI GGGAC 1 cut(s) 459
FatI CATG 2 cut(s) 545, 766
FauI CCCGC 1 cut(s) 461
FbaI TGATCA 1 cut(s) 769
Fnu4HI GCNGC 1 cut(s) 689
FokI GGATG 5 cut(s) 87, 292, 372, 410, 434
Fsp4HI GCNGC 1 cut(s) 689
FspBI CTAG 4 cut(s) 257, 314, 372, 482
GluI GCNGC 1 cut(s) 689
GsaI CCCAGC 1 cut(s) 72
HaeIII GGCC 4 cut(s) 287, 417, 644, 765
HapII CCGG 2 cut(s) 451, 754
Hin1II CATG 2 cut(s) 549, 770
HincII GTYRAC 1 cut(s) 211
HindII GTYRAC 1 cut(s) 211
HindIII AAGCTT 1 cut(s) 805
HinfI GANTC 2 cut(s) 447, 542
HpaII CCGG 2 cut(s) 451, 754
HphI GGTGA 2 cut(s) 20, 727
Hpy166II GTNNAC 1 cut(s) 211
Hpy188I TCNGA 4 cut(s) 556, 598, 649, 672
Hpy188III TCNNGA 5 cut(s) 185, 257, 451, 626, 738
Hpy8I GTNNAC 1 cut(s) 211
HpyAV CCTTC 1 cut(s) 631
HpyCH4III ACNGT 2 cut(s) 236, 393
HpyCH4IV ACGT 1 cut(s) 605
HpyCH4V TGCA 7 cut(s) 87, 216, 329, 431, 499, 588, 691
HpyF10VI GCNNNNNNNGC 2 cut(s) 69, 813
HpyF3I CTNAG 8 cut(s) 360, 402, 438, 520, 540, 553, 646, 669
HpySE526I ACGT 1 cut(s) 605
Hsp92II CATG 2 cut(s) 549, 770
Kpn2I TCCGGA 1 cut(s) 450
KroI GCCGGC 1 cut(s) 753
KroNI GCCGGC 1 cut(s) 755
Ksp22I TGATCA 1 cut(s) 769
Kzo9I GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
Lsp1109I GCAGC 1 cut(s) 675
LweI GCATC 4 cut(s) 109, 250, 316, 388
MaeI CTAG 4 cut(s) 257, 314, 372, 482
MaeII ACGT 1 cut(s) 605
MaeIII GTNAC 2 cut(s) 218, 236
MalI GATC 7 cut(s) 54, 272, 298, 351, 458, 489, 771
MboI GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
MboII GAAGA 8 cut(s) 133, 294, 466, 515, 685, 730, 795, 834
MflI RGATCY 1 cut(s) 456
MluCI AATT 8 cut(s) 112, 223, 228, 251, 278, 366, 557, 726
MlyI GAGTC 2 cut(s) 441, 551
MmeI TCCRAC 3 cut(s) 375, 760, 781
MroI TCCGGA 1 cut(s) 450
MroNI GCCGGC 1 cut(s) 753
MroXI GAANNNNTTC 1 cut(s) 507
MseI TTAA 3 cut(s) 227, 473, 567
MslI CAYNNNNRTG 1 cut(s) 583
MspA1I CMGCKG 1 cut(s) 539
MspI CCGG 2 cut(s) 451, 754
MspR9I CCNGG 1 cut(s) 419
MvaI CCWGG 1 cut(s) 419
MwoI GCNNNNNNNGC 2 cut(s) 69, 813
NaeI GCCGGC 1 cut(s) 755
NdeII GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
NgoMIV GCCGGC 1 cut(s) 753
NlaIII CATG 2 cut(s) 549, 770
PdiI GCCGGC 1 cut(s) 755
PdmI GAANNNNTTC 1 cut(s) 507
PkrI GCNGC 1 cut(s) 690
PleI GAGTC 2 cut(s) 441, 550
PpsI GAGTC 2 cut(s) 441, 550
Psp6I CCWGG 1 cut(s) 417
PspFI CCCAGC 1 cut(s) 68
PspGI CCWGG 1 cut(s) 417
PspPI GGNCC 1 cut(s) 285
PstI CTGCAG 1 cut(s) 218
PsuI RGATCY 1 cut(s) 456
PvuII CAGCTG 1 cut(s) 539
RseI CAYNNNNRTG 1 cut(s) 583
SaqAI TTAA 3 cut(s) 227, 473, 567
SatI GCNGC 1 cut(s) 689
Sau3AI GATC 7 cut(s) 52, 270, 296, 349, 456, 487, 769
Sau96I GGNCC 1 cut(s) 285
SchI GAGTC 2 cut(s) 441, 551
ScrFI CCNGG 1 cut(s) 419
SfaNI GCATC 4 cut(s) 109, 250, 316, 388
SfcI CTRYAG 2 cut(s) 145, 214
SmiMI CAYNNNNRTG 1 cut(s) 583
SmlI CTYRAG 1 cut(s) 624
SmoI CTYRAG 1 cut(s) 624
Sse9I AATT 8 cut(s) 112, 223, 228, 251, 278, 366, 557, 726
SsiI CCGC 2 cut(s) 263, 468
SspMI CTAG 4 cut(s) 257, 314, 372, 482
StyD4I CCNGG 1 cut(s) 417
StyI CCWWGG 1 cut(s) 288
TaaI ACNGT 2 cut(s) 236, 393
TaiI ACGT 1 cut(s) 608
TaqI TCGA 1 cut(s) 295
TasI AATT 8 cut(s) 112, 223, 228, 251, 278, 366, 557, 726
Tru1I TTAA 3 cut(s) 227, 473, 567
Tru9I TTAA 3 cut(s) 227, 473, 567
TscAI CASTG 2 cut(s) 64, 534
TseI GCWGC 1 cut(s) 688
TspDTI ATGAA 4 cut(s) 160, 294, 374, 564
TspRI CASTG 2 cut(s) 64, 534
XapI RAATTY 1 cut(s) 251
XbaI TCTAGA 1 cut(s) 256
XcmI CCANNNNNNNNNTGG 1 cut(s) 111
XmnI GAANNNNTTC 1 cut(s) 507
XspI CTAG 4 cut(s) 257, 314, 372, 482
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.