Rroxscaffold_1G00033640

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0012923
Physical Location & Seq
Reverse (-)
48746366 .. 48748769
2404 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00033640.1

Sequence Viewer

Length: 747 bp
ATGGCTGCTTCAACTGAGAGCGTAGATGTGTTCTGGGACTCGGGCATGCTGAACCACAACTCGGGCACCGGAGTATTCGACACTGGAATGGATCCTGGATTCCTTGACGTGTTAGAAAAGCACCCAGAGAACTCTGATAGAGTCAAGAACATGGTTTCTATTCTAAGGCGCGGCCCAATCTCTCGCTACATTTCTTGGCTTCCTGGAAGGCATGCCCTGCTTCCTGAATTGCTCTCTTTCCACTCTCCAGAGTACATAAATGAACTAGTTGAAGCAGATAAAGAGGGAGGTAAGATGCTAAGTGCCGGGACTTTCTTGAACCCCGGCTCGTGGGATGCCTCCCTTCTTGCTGCCGGTACTACACTATCCGCAATGAAGCATGTGCTTGACGGAAATGGCAAAATTGCTTATGCATTGGTCAGGCCACCGGGTCACCATGCTCAGCCTACTCGAGCTGATGGCTACTGCTTCCTTAACAATGCTGGCCTAGCTGTTCAGCTTGCTTTAGACTCTGGCTGTGCAAAGGTCGCAGTGATAGACATTGATGTTCATTATGGCAATGGGACTGCAGAGGGGTTTTATCGGTCTGATAAGGTTCTTACAACTTCTCTTCATATGAATCATGGTACTTGCGGTCCATGTCACCAACAGAATGGCTCTATTCATGAGCTCGGTGAAGGGGAGGGCTTCGGTTATAATTTGAAAATACCTTTGCCCAATGGGACAGGGGACCGAGGATATGTGTAA
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
Hist_deacetyl

Protein Analysis

248

Amino Acids

26.59

Weight (kDa)

5.68

Isoelectric Point (pI)

23.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hist_deacetyl PF00850 41 - 247 1.2e-54 Histone deacetylase domain
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: OG0012923)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G08460 AT1G08460
fragaria_vesca FvH4_3g26560 FvH4_3g26560
malus_domestica MD03G1154900.v1.1
prunus_persica Prupe.6G143900_v2.0.a1
pyrus_communis pycom03g10870
rosa_chinensis RchiOBHm_Chr5g0048241
rosa_laevigata RLG00000034504
rosa_multiflora Rmu_sc0001408.1_g000004
rosa_roxburghii Rroxscaffold_1G00033640 Rroxscaffold_1G00033650
rosa_rugosa Rorug05G0237300
rosa_samantha Rh5AG316500 Rh5BG327100 Rh5CG353300 Rh5DG338200
rosa_wichuraiana Rw5G029660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 696
AccB1I GGYRCC 1 cut(s) 65
AccII CGCG 1 cut(s) 171
AciI CCGC 3 cut(s) 171, 369, 633
AclWI GGATC 2 cut(s) 86, 99
AfaI GTAC 3 cut(s) 254, 358, 628
AfiI CCNNNNNNNGG 2 cut(s) 61, 330
AflIII ACRYGT 1 cut(s) 108
AgsI TTSAA 4 cut(s) 12, 272, 319, 703
AhlI ACTAGT 1 cut(s) 265
AjiI CACGTC 1 cut(s) 109
AjnI CCWGG 2 cut(s) 94, 202
AluBI AGCT 4 cut(s) 455, 491, 499, 670
AluI AGCT 4 cut(s) 455, 491, 499, 670
Alw21I GWGCWC 1 cut(s) 672
AlwI GGATC 2 cut(s) 86, 99
Ama87I CYCGRG 3 cut(s) 40, 61, 450
AoxI GGCC 3 cut(s) 172, 422, 484
ApeKI GCWGC 2 cut(s) 5, 350
AspLEI GCGC 1 cut(s) 171
AspS9I GGNCC 3 cut(s) 173, 635, 730
AsuC2I CCSGG 3 cut(s) 307, 324, 429
AsuHPI GGTGA 3 cut(s) 425, 635, 686
AvaI CYCGRG 3 cut(s) 40, 61, 450
AvaII GGWCC 2 cut(s) 635, 730
BaeGI GKGCMC 1 cut(s) 68
BamHI GGATCC 1 cut(s) 91
BanI GGYRCC 1 cut(s) 65
BanII GRGCYC 1 cut(s) 672
BauI CACGAG 1 cut(s) 328
Bbv12I GWGCWC 1 cut(s) 672
BbvI GCAGC 1 cut(s) 337
BccI CCATC 1 cut(s) 452
BciT130I CCWGG 2 cut(s) 96, 204
BcnI CCSGG 3 cut(s) 307, 324, 429
BcuI ACTAGT 1 cut(s) 265
BfaI CTAG 2 cut(s) 266, 488
BfmI CTRYAG 1 cut(s) 567
BisI GCNGC 3 cut(s) 6, 172, 351
BlpI GCTNAGC 1 cut(s) 441
BlsI GCNGC 3 cut(s) 7, 173, 352
Bme1390I CCNGG 5 cut(s) 96, 204, 307, 324, 429
Bme18I GGWCC 2 cut(s) 635, 730
BmeT110I CYCGRG 3 cut(s) 40, 61, 450
BmgBI CACGTC 1 cut(s) 109
BmgT120I GGNCC 3 cut(s) 173, 635, 730
BmiI GGNNCC 3 cut(s) 67, 93, 731
BmrFI CCNGG 5 cut(s) 96, 204, 307, 324, 429
BmsI GCATC 2 cut(s) 285, 325
BpmI CTGGAG 1 cut(s) 231
Bpu1102I GCTNAGC 1 cut(s) 441
BpuMI CCSGG 3 cut(s) 307, 324, 429
BsaJI CCNNGG 2 cut(s) 322, 733
BsaWI WCCGGW 1 cut(s) 68
Bsc4I CCNNNNNNNGG 2 cut(s) 61, 330
Bse118I RCCGGY 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 88
Bse3DI GCAATG 2 cut(s) 378, 565
BseBI CCWGG 2 cut(s) 96, 204
BseDI CCNNGG 2 cut(s) 322, 733
BseGI GGATG 1 cut(s) 340
BseLI CCNNNNNNNGG 2 cut(s) 61, 330
BseMI GCAATG 2 cut(s) 378, 565
BseMII CTCAG 2 cut(s) 6, 455
BseNI ACTGG 1 cut(s) 88
BseSI GKGCMC 1 cut(s) 68
BseXI GCAGC 1 cut(s) 337
Bsh1236I CGCG 1 cut(s) 171
BshFI GGCC 3 cut(s) 174, 424, 486
BshNI GGYRCC 1 cut(s) 65
BsiHKAI GWGCWC 1 cut(s) 672
BsiHKCI CYCGRG 3 cut(s) 40, 61, 450
BsiSI CCGG 5 cut(s) 69, 306, 324, 354, 428
BslFI GGGAC 5 cut(s) 50, 322, 577, 736, 743
BslI CCNNNNNNNGG 2 cut(s) 61, 330
BsmFI GGGAC 5 cut(s) 50, 322, 577, 736, 743
BsnI GGCC 3 cut(s) 174, 424, 486
BsoBI CYCGRG 3 cut(s) 40, 61, 450
Bsp1286I GDGCHC 2 cut(s) 68, 672
Bsp143I GATC 1 cut(s) 91
Bsp1720I GCTNAGC 1 cut(s) 441
BspACI CCGC 3 cut(s) 171, 369, 633
BspANI GGCC 3 cut(s) 174, 424, 486
BspCNI CTCAG 2 cut(s) 7, 454
BspFNI CGCG 1 cut(s) 171
BspHI TCATGA 1 cut(s) 664
BspLI GGNNCC 3 cut(s) 67, 93, 731
BspMAI CTGCAG 1 cut(s) 571
BspPI GGATC 2 cut(s) 86, 99
BspT107I GGYRCC 1 cut(s) 65
BsrDI GCAATG 2 cut(s) 378, 565
BsrFI RCCGGY 1 cut(s) 353
BsrI ACTGG 1 cut(s) 88
BssAI RCCGGY 1 cut(s) 353
BssECI CCNNGG 2 cut(s) 322, 733
BssMI GATC 1 cut(s) 91
BssSI CACGAG 1 cut(s) 328
Bst2BI CACGAG 1 cut(s) 328
Bst2UI CCWGG 2 cut(s) 96, 204
Bst6I CTCTTC 1 cut(s) 615
BstAPI GCANNNNNTGC 1 cut(s) 217
BstC8I GCNNGC 4 cut(s) 47, 213, 484, 501
BstDEI CTNAG 4 cut(s) 15, 164, 299, 441
BstEII GGTNACC 1 cut(s) 431
BstF5I GGATG 1 cut(s) 340
BstFNI CGCG 1 cut(s) 171
BstHHI GCGC 1 cut(s) 171
BstKTI GATC 1 cut(s) 94
BstMBI GATC 1 cut(s) 91
BstMWI GCNNNNNNNGC 3 cut(s) 217, 488, 527
BstNI CCWGG 2 cut(s) 96, 204
BstNSI RCATGY 3 cut(s) 49, 215, 383
BstPI GGTNACC 1 cut(s) 431
BstSCI CCNGG 5 cut(s) 94, 202, 305, 322, 427
BstSFI CTRYAG 1 cut(s) 567
BstSLI GKGCMC 1 cut(s) 68
BstUI CGCG 1 cut(s) 171
BstV1I GCAGC 1 cut(s) 337
BstX2I RGATCY 1 cut(s) 91
BstXI CCANNNNNNTGG 1 cut(s) 653
BstYI RGATCY 1 cut(s) 91
BsuRI GGCC 3 cut(s) 174, 424, 486
BtrI CACGTC 1 cut(s) 109
BtsCI GGATG 1 cut(s) 340
BtsI GCAGTG 1 cut(s) 537
BtsIMutI CAGTG 2 cut(s) 81, 537
Cac8I GCNNGC 4 cut(s) 47, 213, 484, 501
CciI TCATGA 1 cut(s) 664
CfoI GCGC 1 cut(s) 171
Cfr10I RCCGGY 1 cut(s) 353
Cfr13I GGNCC 3 cut(s) 173, 635, 730
Csp6I GTAC 3 cut(s) 253, 357, 627
CviAII CATG 8 cut(s) 46, 151, 212, 380, 437, 623, 639, 665
CviQI GTAC 3 cut(s) 253, 357, 627
DdeI CTNAG 4 cut(s) 15, 164, 299, 441
DpnI GATC 1 cut(s) 93
DpnII GATC 1 cut(s) 91
Eam1104I CTCTTC 1 cut(s) 615
EarI CTCTTC 1 cut(s) 615
Ecl136II GAGCTC 1 cut(s) 670
Eco24I GRGCYC 1 cut(s) 672
Eco47I GGWCC 2 cut(s) 635, 730
Eco53kI GAGCTC 1 cut(s) 670
Eco88I CYCGRG 3 cut(s) 40, 61, 450
Eco91I GGTNACC 1 cut(s) 431
EcoICRI GAGCTC 1 cut(s) 670
EcoO65I GGTNACC 1 cut(s) 431
EcoRII CCWGG 2 cut(s) 94, 202
EcoT22I ATGCAT 1 cut(s) 415
EcoT38I GRGCYC 1 cut(s) 672
FaeI CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 642, 668
FaqI GGGAC 5 cut(s) 50, 322, 577, 736, 743
FatI CATG 8 cut(s) 45, 150, 211, 379, 436, 622, 638, 664
FauNDI CATATG 1 cut(s) 615
Fnu4HI GCNGC 3 cut(s) 6, 172, 351
FokI GGATG 1 cut(s) 347
FriOI GRGCYC 1 cut(s) 672
Fsp4HI GCNGC 3 cut(s) 6, 172, 351
FspBI CTAG 2 cut(s) 266, 488
GlaI GCGC 1 cut(s) 170
GluI GCNGC 3 cut(s) 6, 172, 351
GsuI CTGGAG 1 cut(s) 231
HaeIII GGCC 3 cut(s) 174, 424, 486
HapII CCGG 5 cut(s) 69, 306, 324, 354, 428
HhaI GCGC 1 cut(s) 171
Hin1II CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 642, 668
Hin6I GCGC 1 cut(s) 169
HinP1I GCGC 1 cut(s) 169
HinfI GANTC 5 cut(s) 38, 99, 141, 509, 619
HpaII CCGG 5 cut(s) 69, 306, 324, 354, 428
HphI GGTGA 3 cut(s) 425, 635, 686
Hpy188I TCNGA 2 cut(s) 136, 589
Hpy188III TCNNGA 5 cut(s) 145, 224, 248, 316, 665
HpyAV CCTTC 3 cut(s) 201, 353, 671
HpyCH4IV ACGT 1 cut(s) 108
HpyCH4V TGCA 3 cut(s) 413, 521, 569
HpyF10VI GCNNNNNNNGC 3 cut(s) 217, 488, 527
HpyF3I CTNAG 4 cut(s) 15, 164, 299, 441
HpySE526I ACGT 1 cut(s) 108
Hsp92II CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 642, 668
HspAI GCGC 1 cut(s) 169
Kzo9I GATC 1 cut(s) 91
Lsp1109I GCAGC 1 cut(s) 337
LweI GCATC 2 cut(s) 285, 325
MaeI CTAG 2 cut(s) 266, 488
MaeII ACGT 1 cut(s) 108
MaeIII GTNAC 2 cut(s) 431, 641
MalI GATC 1 cut(s) 93
MboI GATC 1 cut(s) 91
MboII GAAGA 1 cut(s) 602
MflI RGATCY 1 cut(s) 91
MhlI GDGCHC 2 cut(s) 68, 672
MluCI AATT 3 cut(s) 227, 402, 697
MlyI GAGTC 3 cut(s) 32, 150, 503
MnlI CCTC 6 cut(s) 277, 281, 349, 565, 676, 728
Mph1103I ATGCAT 1 cut(s) 415
MseI TTAA 1 cut(s) 474
MslI CAYNNNNRTG 1 cut(s) 86
MspI CCGG 5 cut(s) 69, 306, 324, 354, 428
MspR9I CCNGG 5 cut(s) 96, 204, 307, 324, 429
MvaI CCWGG 2 cut(s) 96, 204
MvnI CGCG 1 cut(s) 171
MwoI GCNNNNNNNGC 3 cut(s) 217, 488, 527
NciI CCSGG 3 cut(s) 307, 324, 429
NdeI CATATG 1 cut(s) 615
NdeII GATC 1 cut(s) 91
NlaIII CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 642, 668
NlaIV GGNNCC 3 cut(s) 67, 93, 731
NmuCI GTSAC 2 cut(s) 431, 641
NsiI ATGCAT 1 cut(s) 415
NspI RCATGY 3 cut(s) 49, 215, 383
PaeI GCATGC 2 cut(s) 49, 215
PaeR7I CTCGAG 1 cut(s) 450
PagI TCATGA 1 cut(s) 664
PfeI GAWTC 2 cut(s) 99, 619
PfoI TCCNGGA 2 cut(s) 94, 202
PkrI GCNGC 3 cut(s) 7, 173, 352
PleI GAGTC 3 cut(s) 32, 149, 503
PpsI GAGTC 3 cut(s) 32, 149, 503
PsiI TTATAA 1 cut(s) 696
Psp124BI GAGCTC 1 cut(s) 672
Psp6I CCWGG 2 cut(s) 94, 202
PspEI GGTNACC 1 cut(s) 431
PspGI CCWGG 2 cut(s) 94, 202
PspN4I GGNNCC 3 cut(s) 67, 93, 731
PspPI GGNCC 3 cut(s) 173, 635, 730
PspXI VCTCGAGB 1 cut(s) 450
PstI CTGCAG 1 cut(s) 571
PsuI RGATCY 1 cut(s) 91
RsaI GTAC 3 cut(s) 254, 358, 628
RsaNI GTAC 3 cut(s) 253, 357, 627
RseI CAYNNNNRTG 1 cut(s) 86
SacI GAGCTC 1 cut(s) 672
SaqAI TTAA 1 cut(s) 474
SatI GCNGC 3 cut(s) 6, 172, 351
Sau3AI GATC 1 cut(s) 91
Sau96I GGNCC 3 cut(s) 173, 635, 730
SchI GAGTC 3 cut(s) 32, 150, 503
ScrFI CCNGG 5 cut(s) 96, 204, 307, 324, 429
SduI GDGCHC 2 cut(s) 68, 672
SetI ASST 9 cut(s) 111, 292, 457, 493, 501, 528, 597, 672, 712
SfaNI GCATC 2 cut(s) 285, 325
SfcI CTRYAG 1 cut(s) 567
Sfr274I CTCGAG 1 cut(s) 450
SinI GGWCC 2 cut(s) 635, 730
SlaI CTCGAG 1 cut(s) 450
SmiMI CAYNNNNRTG 1 cut(s) 86
SmlI CTYRAG 1 cut(s) 450
SmoI CTYRAG 1 cut(s) 450
SpeI ACTAGT 1 cut(s) 265
SphI GCATGC 2 cut(s) 49, 215
Sse9I AATT 3 cut(s) 227, 402, 697
SsiI CCGC 3 cut(s) 171, 369, 633
SspMI CTAG 2 cut(s) 266, 488
SstI GAGCTC 1 cut(s) 672
StyD4I CCNGG 5 cut(s) 94, 202, 305, 322, 427
TaiI ACGT 1 cut(s) 111
TaqI TCGA 2 cut(s) 78, 451
TaqII GACCGA 2 cut(s) 573, 747
TasI AATT 3 cut(s) 227, 402, 697
TatI WGTACW 1 cut(s) 252
TauI GCSGC 1 cut(s) 174
TfiI GAWTC 2 cut(s) 99, 619
Tru1I TTAA 1 cut(s) 474
Tru9I TTAA 1 cut(s) 474
TscAI CASTG 2 cut(s) 88, 537
TseFI GTSAC 2 cut(s) 431, 641
TseI GCWGC 2 cut(s) 5, 350
Tsp45I GTSAC 2 cut(s) 431, 641
TspDTI ATGAA 6 cut(s) 276, 389, 539, 602, 632, 653
TspGWI ACGGA 1 cut(s) 405
TspRI CASTG 2 cut(s) 88, 537
VpaK11BI GGWCC 2 cut(s) 635, 730
XceI RCATGY 3 cut(s) 49, 215, 383
XhoI CTCGAG 1 cut(s) 450
XspI CTAG 2 cut(s) 266, 488
Zsp2I ATGCAT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.