Rroxscaffold_7G00212070

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000538
Physical Location & Seq
Forward (+)
62527067 .. 62529095
2029 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00212070.1

Sequence Viewer

Length: 846 bp
ATGCAGCATTATGAGAAGACAAAGCATTGTCTTTGTGTCAACTGCAGCACAAAATCAATTTACTGTTGCTCCTGTAGTAAAACTCTAGATGCGCAAGTGATCCAACAATTATGGGTCAAGGGTCGATCCACTTCATCCAAGCTAGAGAGCATTGATGTAATGATTGTTGGTGTTATTGATCTCTTGTCTAAACCTTTTCCTAGCATCAATGTTCATCCACAGTTGGATGCTCAGTCATTTGTAGGCCAGGATGAACTTGCATTGGCTAAGGAGGGACTGCAAAAGATCTTTGATAACGGGTTAATAGCTGTAGCTGATCCCAAAGTGCAAGAAAAGTTTCTCCTTTACTCAGCCACATTGCTATCAGCTGAGTCATGCCCCTCAGAATTGAAGGTTAACCTCTCATCATTCAGATGCAATCTTCCAGAGGAAACCTCTGCTTTCATCAAAGCTCAAGATGAGTTGAAGGTGGCTTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTGGTGCGGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTTGCCTCGGACGAGAAAGTTTCTAACTTCAAGGCCATGATCAAAGAATTGAAAGCACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACGGAAAAGAGCAACAGAGCAAAGAATGATGAGGCTATTGATTCCATAGAGAAACAAGTCACCACCGCGAGAGATGGGTTGGTCTCGGACTTGGCACAAGTGTCTTCCATGGAAGGATCGACCCAAGCAGCTAACGAGTTAGTAGCTCGAAAACAGTCAGACTGGGACAACTTAAAGCTTAGTTTTACCAAGTTTGCATGA
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

31.11

Weight (kDa)

6.83

Isoelectric Point (pI)

34.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 2 - 30 5.9e-06 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) 93
AccII CGCG 1 cut(s) 713
AciI CCGC 2 cut(s) 517, 711
AclWI GGATC 4 cut(s) 94, 120, 311, 769
AcuI CTGAAG 1 cut(s) 459
AgsI TTSAA 5 cut(s) 391, 466, 531, 589, 610
AjnI CCWGG 1 cut(s) 246
AluBI AGCT 9 cut(s) 142, 308, 314, 368, 452, 635, 776, 791, 823
AluI AGCT 9 cut(s) 142, 308, 314, 368, 452, 635, 776, 791, 823
Alw26I GTCTC 1 cut(s) 733
AlwI GGATC 4 cut(s) 94, 120, 311, 769
AoxI GGCC 2 cut(s) 244, 591
ApeKI GCWGC 3 cut(s) 4, 45, 773
Asp700I GAANNNNTTC 1 cut(s) 336
AspLEI GCGC 1 cut(s) 94
AsuHPI GGTGA 2 cut(s) 556, 697
BbsI GAAGAC 2 cut(s) 23, 741
BbvI GCAGC 3 cut(s) 16, 57, 785
BccI CCATC 1 cut(s) 713
BciT130I CCWGG 1 cut(s) 248
BclI TGATCA 1 cut(s) 597
BcoDI GTCTC 1 cut(s) 733
BfaI CTAG 3 cut(s) 86, 143, 201
BfmI CTRYAG 3 cut(s) 43, 73, 309
BglII AGATCT 1 cut(s) 285
BisI GCNGC 4 cut(s) 5, 46, 518, 774
BlsI GCNGC 4 cut(s) 6, 47, 519, 775
Bme1390I CCNGG 1 cut(s) 248
BmrFI CCNGG 1 cut(s) 248
BmrI ACTGGG 1 cut(s) 817
BmsI GCATC 4 cut(s) 79, 213, 217, 404
BmuI ACTGGG 1 cut(s) 817
BpiI GAAGAC 2 cut(s) 23, 741
BplI GAGNNNNNCTC 2 cut(s) 419, 451
Bpu10I CCTNAGC 1 cut(s) 267
BpuEI CTTGAG 1 cut(s) 438
BsaI GGTCTC 1 cut(s) 733
BsaJI CCNNGG 3 cut(s) 564, 645, 753
BsaXI ACNNNNNCTCC 2 cut(s) 53, 83
Bse1I ACTGG 1 cut(s) 812
Bse3DI GCAATG 1 cut(s) 356
BseBI CCWGG 1 cut(s) 248
BseDI CCNNGG 3 cut(s) 564, 645, 753
BseGI GGATG 4 cut(s) 134, 214, 232, 256
BseMI GCAATG 1 cut(s) 356
BseMII CTCAG 5 cut(s) 245, 360, 363, 396, 512
BseNI ACTGG 1 cut(s) 812
BseXI GCAGC 3 cut(s) 16, 57, 785
Bsh1236I CGCG 1 cut(s) 713
BshFI GGCC 2 cut(s) 246, 593
BslFI GGGAC 2 cut(s) 288, 824
BsmAI GTCTC 1 cut(s) 733
BsmFI GGGAC 2 cut(s) 288, 824
BsnI GGCC 2 cut(s) 246, 593
Bso31I GGTCTC 1 cut(s) 733
Bsp143I GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
Bsp19I CCATGG 1 cut(s) 753
BspACI CCGC 2 cut(s) 517, 711
BspANI GGCC 2 cut(s) 246, 593
BspCNI CTCAG 5 cut(s) 244, 361, 362, 395, 511
BspFNI CGCG 1 cut(s) 713
BspMAI CTGCAG 1 cut(s) 47
BspPI GGATC 4 cut(s) 94, 120, 311, 769
BspTNI GGTCTC 1 cut(s) 733
BsrDI GCAATG 1 cut(s) 356
BsrI ACTGG 1 cut(s) 812
BssECI CCNNGG 3 cut(s) 564, 645, 753
BssMI GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
BssT1I CCWWGG 1 cut(s) 753
Bst2UI CCWGG 1 cut(s) 248
Bst4CI ACNGT 3 cut(s) 65, 222, 801
BstDEI CTNAG 7 cut(s) 231, 267, 349, 369, 382, 498, 824
BstDSI CCRYGG 2 cut(s) 645, 753
BstF5I GGATG 4 cut(s) 134, 214, 232, 256
BstFNI CGCG 1 cut(s) 713
BstHHI GCGC 1 cut(s) 94
BstKTI GATC 7 cut(s) 102, 128, 181, 288, 319, 600, 764
BstMAI GTCTC 1 cut(s) 733
BstMBI GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
BstMWI GCNNNNNNNGC 1 cut(s) 641
BstNI CCWGG 1 cut(s) 248
BstSCI CCNGG 1 cut(s) 246
BstSFI CTRYAG 3 cut(s) 43, 73, 309
BstUI CGCG 1 cut(s) 713
BstV1I GCAGC 3 cut(s) 16, 57, 785
BstV2I GAAGAC 2 cut(s) 23, 741
BstX2I RGATCY 1 cut(s) 285
BstYI RGATCY 1 cut(s) 285
BsuRI GGCC 2 cut(s) 246, 593
BtgI CCRYGG 2 cut(s) 645, 753
BtsCI GGATG 4 cut(s) 134, 214, 232, 256
CfoI GCGC 1 cut(s) 94
CviAII CATG 4 cut(s) 375, 595, 754, 843
DdeI CTNAG 7 cut(s) 231, 267, 349, 369, 382, 498, 824
DpnI GATC 7 cut(s) 101, 127, 180, 287, 318, 599, 763
DpnII GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
Eco130I CCWWGG 1 cut(s) 753
Eco31I GGTCTC 1 cut(s) 733
Eco57I CTGAAG 1 cut(s) 459
EcoRII CCWGG 1 cut(s) 246
EcoT14I CCWWGG 1 cut(s) 753
ErhI CCWWGG 1 cut(s) 753
FaeI CATG 4 cut(s) 378, 598, 757, 846
FaiI YATR 8 cut(s) 12, 112, 376, 537, 596, 692, 755, 844
FaqI GGGAC 2 cut(s) 288, 824
FatI CATG 4 cut(s) 374, 594, 753, 842
FbaI TGATCA 1 cut(s) 597
Fnu4HI GCNGC 4 cut(s) 5, 46, 518, 774
FokI GGATG 4 cut(s) 121, 201, 239, 263
Fsp4HI GCNGC 4 cut(s) 5, 46, 518, 774
FspBI CTAG 3 cut(s) 86, 143, 201
FspI TGCGCA 1 cut(s) 93
GlaI GCGC 1 cut(s) 93
GluI GCNGC 4 cut(s) 5, 46, 518, 774
HaeIII GGCC 2 cut(s) 246, 593
HhaI GCGC 1 cut(s) 94
Hin1II CATG 4 cut(s) 378, 598, 757, 846
Hin6I GCGC 1 cut(s) 92
HinP1I GCGC 1 cut(s) 92
HincII GTYRAC 2 cut(s) 40, 397
HindII GTYRAC 2 cut(s) 40, 397
HindIII AAGCTT 2 cut(s) 633, 821
HinfI GANTC 2 cut(s) 371, 686
HpaI GTTAAC 1 cut(s) 397
HphI GGTGA 2 cut(s) 556, 697
Hpy166II GTNNAC 2 cut(s) 40, 397
Hpy188I TCNGA 7 cut(s) 385, 413, 478, 501, 568, 733, 805
Hpy188III TCNNGA 3 cut(s) 86, 425, 455
Hpy8I GTNNAC 2 cut(s) 40, 397
HpyAV CCTTC 3 cut(s) 385, 460, 752
HpyCH4III ACNGT 3 cut(s) 65, 222, 801
HpyCH4V TGCA 7 cut(s) 4, 45, 260, 280, 328, 417, 842
HpyF10VI GCNNNNNNNGC 1 cut(s) 641
HpyF3I CTNAG 7 cut(s) 231, 267, 349, 369, 382, 498, 824
Hsp92II CATG 4 cut(s) 378, 598, 757, 846
HspAI GCGC 1 cut(s) 92
Ksp22I TGATCA 1 cut(s) 597
KspAI GTTAAC 1 cut(s) 397
Kzo9I GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
LmnI GCTCC 1 cut(s) 74
LpnPI CCDG 5 cut(s) 85, 233, 260, 438, 793
Lsp1109I GCAGC 3 cut(s) 16, 57, 785
LweI GCATC 4 cut(s) 79, 213, 217, 404
MaeI CTAG 3 cut(s) 86, 143, 201
MaeIII GTNAC 1 cut(s) 703
MalI GATC 7 cut(s) 101, 127, 180, 287, 318, 599, 763
MboI GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
MboII GAAGA 5 cut(s) 28, 413, 514, 559, 741
MflI RGATCY 1 cut(s) 285
MluCI AATT 5 cut(s) 57, 107, 386, 555, 605
MlyI GAGTC 1 cut(s) 380
MmeI TCCRAC 3 cut(s) 127, 204, 609
MnlI CCTC 9 cut(s) 265, 391, 410, 421, 445, 499, 535, 574, 670
MroXI GAANNNNTTC 1 cut(s) 336
MseI TTAA 3 cut(s) 302, 396, 818
MslI CAYNNNNRTG 1 cut(s) 412
MspA1I CMGCKG 1 cut(s) 368
MspR9I CCNGG 1 cut(s) 248
MvaI CCWGG 1 cut(s) 248
MvnI CGCG 1 cut(s) 713
MwoI GCNNNNNNNGC 1 cut(s) 641
NcoI CCATGG 1 cut(s) 753
NdeII GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
NlaIII CATG 4 cut(s) 378, 598, 757, 846
NmuCI GTSAC 1 cut(s) 703
NsbI TGCGCA 1 cut(s) 93
PdmI GAANNNNTTC 1 cut(s) 336
PfeI GAWTC 1 cut(s) 686
PkrI GCNGC 4 cut(s) 6, 47, 519, 775
PleI GAGTC 1 cut(s) 379
PpsI GAGTC 1 cut(s) 379
Psp6I CCWGG 1 cut(s) 246
PspGI CCWGG 1 cut(s) 246
PstI CTGCAG 1 cut(s) 47
PsuI RGATCY 1 cut(s) 285
PvuII CAGCTG 1 cut(s) 368
RseI CAYNNNNRTG 1 cut(s) 412
SaqAI TTAA 3 cut(s) 302, 396, 818
SatI GCNGC 4 cut(s) 5, 46, 518, 774
Sau3AI GATC 7 cut(s) 99, 125, 178, 285, 316, 597, 761
SchI GAGTC 1 cut(s) 380
ScrFI CCNGG 1 cut(s) 248
SfaNI GCATC 4 cut(s) 79, 213, 217, 404
SfcI CTRYAG 3 cut(s) 43, 73, 309
SmiMI CAYNNNNRTG 1 cut(s) 412
SmlI CTYRAG 1 cut(s) 453
SmoI CTYRAG 1 cut(s) 453
Sse9I AATT 5 cut(s) 57, 107, 386, 555, 605
SsiI CCGC 2 cut(s) 517, 711
SspMI CTAG 3 cut(s) 86, 143, 201
StyD4I CCNGG 1 cut(s) 246
StyI CCWWGG 1 cut(s) 753
TaaI ACNGT 3 cut(s) 65, 222, 801
TaqI TCGA 3 cut(s) 124, 764, 793
TasI AATT 5 cut(s) 57, 107, 386, 555, 605
TauI GCSGC 1 cut(s) 520
TfiI GAWTC 1 cut(s) 686
Tru1I TTAA 3 cut(s) 302, 396, 818
Tru9I TTAA 3 cut(s) 302, 396, 818
TseFI GTSAC 1 cut(s) 703
TseI GCWGC 3 cut(s) 4, 45, 773
Tsp45I GTSAC 1 cut(s) 703
TspDTI ATGAA 4 cut(s) 123, 203, 267, 433
TspGWI ACGGA 1 cut(s) 662
XbaI TCTAGA 1 cut(s) 85
XmnI GAANNNNTTC 1 cut(s) 336
XspI CTAG 3 cut(s) 86, 143, 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.