Rh5DG338200

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0012923
Physical Location & Seq
Forward (+)
45522726 .. 45525421
2696 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG338200.1

Sequence Viewer

Length: 900 bp
ATGGCTGCTTCAACTGAGCGCGTAGATGTGTTCTGGGACTCGGGCATGCTGAACCATAACTCAGGCACCGGAGTATTCGACACCGGAATGGATCCTGGATTCCTTGACGTGTTAGAAAAGCACCCAGAGAACTCTGATAGAGTCAAGAACATGGTTTCTATTCTAAAGCGCGGCCCAATCTCTCCCTACATTTCTTGGCTTCCTGGAAGGCATGCCCTGCTTCCTGAATTGCTCACTTTTCACTCTCCAGAGTACATAAATGAACTAGTTGAAGCAGATAAAGAGGGAGGTAAGATGCTATGTGCCGGGACTTTCTTGAACCCCGGCTCGTGGGATGCCTCCCTTCTTGCTGCTGGTACTACACTATCCGCAATGAAGCATGTGCTTGACGGAAATGGCAAAATTGCTTATGCATTGGTCAGGCCTCCGGGTCACCATGCTCAGCCTACTCGAGCTGATGGCTACTGCTTCCTTAACAATGCTGGTCTTGCTGTTCAGCTTGCTTTAGACTCTGGCTGTGCAAAGGTCGCGGTGATAGACATTGATGTTCATTATGGCAATGGGACCGCTGAGGGGTTTTATCGGTCTGATAAGGTTCTTACAACTTCCCTTCATATGAATCATGGTACTTGGGGTCCATCTCACCCACAGAATGGCTCTATTCATGAGCTCGGTGAAGGGGAGGGCTTCGGTTATAATTTGAATATACCTTTGCCCAATGGGACAGGGGACCGAGGATATGTGTATGCTATGAACGAGTTGGTTGCCCCGGCAGTCAGAAAGTTTGAGCCTGAAATGATAGTTTTGGTCATTGGCCAAGATTCTAGTGCTGTAAGTTTAGTTTTTCTGCTCAACTTTTATTTAGTTGTTTATTGTTTAAGGATCATGTCTCGGTTTTAA
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

299

Amino Acids

32.46

Weight (kDa)

5.59

Isoelectric Point (pI)

29.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hist_deacetyl PF00850 41 - 277 1.6e-67 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
AccB7I CCANNNNNTGG 1 cut(s) 653
AccII CGCG 3 cut(s) 21, 171, 530
AciI CCGC 4 cut(s) 171, 369, 530, 567
AclWI GGATC 3 cut(s) 86, 99, 890
AcoI YGGCCR 1 cut(s) 814
AfaI GTAC 3 cut(s) 254, 358, 628
AfiI CCNNNNNNNGG 3 cut(s) 330, 573, 653
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 3 cut(s) 455, 499, 670
AluI AGCT 3 cut(s) 455, 499, 670
Alw21I GWGCWC 1 cut(s) 672
Alw26I GTCTC 1 cut(s) 894
AlwI GGATC 3 cut(s) 86, 99, 890
Ama87I CYCGRG 2 cut(s) 40, 450
AoxI GGCC 3 cut(s) 172, 422, 814
ApeKI GCWGC 2 cut(s) 5, 350
AspLEI GCGC 2 cut(s) 21, 171
AspS9I GGNCC 4 cut(s) 173, 564, 635, 730
AsuC2I CCSGG 4 cut(s) 307, 324, 429, 770
AsuHPI GGTGA 4 cut(s) 425, 544, 635, 686
AvaI CYCGRG 2 cut(s) 40, 450
AvaII GGWCC 3 cut(s) 564, 635, 730
BalI TGGCCA 1 cut(s) 816
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
BbvCI CCTCAGC 1 cut(s) 570
BbvI GCAGC 1 cut(s) 337
BccI CCATC 2 cut(s) 452, 646
BcgI CGANNNNNNTGC 2 cut(s) 746, 780
BciT130I CCWGG 2 cut(s) 96, 204
BcnI CCSGG 4 cut(s) 307, 324, 429, 770
BcoDI GTCTC 1 cut(s) 894
BcuI ACTAGT 1 cut(s) 265
BfaI CTAG 2 cut(s) 266, 825
BisI GCNGC 3 cut(s) 6, 172, 351
BlpI GCTNAGC 1 cut(s) 441
BlsI GCNGC 3 cut(s) 7, 173, 352
Bme1390I CCNGG 6 cut(s) 96, 204, 307, 324, 429, 770
Bme18I GGWCC 3 cut(s) 564, 635, 730
BmeT110I CYCGRG 2 cut(s) 40, 450
BmgBI CACGTC 1 cut(s) 109
BmgT120I GGNCC 4 cut(s) 173, 564, 635, 730
BmiI GGNNCC 5 cut(s) 67, 93, 565, 636, 731
BmrFI CCNGG 6 cut(s) 96, 204, 307, 324, 429, 770
BmsI GCATC 2 cut(s) 285, 325
BpmI CTGGAG 1 cut(s) 231
Bpu10I CCTNAGC 1 cut(s) 570
Bpu1102I GCTNAGC 1 cut(s) 441
BpuMI CCSGG 4 cut(s) 307, 324, 429, 770
BsaJI CCNNGG 3 cut(s) 322, 733, 768
BsaWI WCCGGW 2 cut(s) 68, 83
Bsc4I CCNNNNNNNGG 3 cut(s) 330, 573, 653
Bse3DI GCAATG 2 cut(s) 378, 565
BseBI CCWGG 2 cut(s) 96, 204
BseDI CCNNGG 3 cut(s) 322, 733, 768
BseGI GGATG 1 cut(s) 340
BseLI CCNNNNNNNGG 3 cut(s) 330, 573, 653
BseMI GCAATG 2 cut(s) 378, 565
BseMII CTCAG 4 cut(s) 6, 75, 455, 561
BseXI GCAGC 1 cut(s) 337
Bsh1236I CGCG 3 cut(s) 21, 171, 530
BshFI GGCC 3 cut(s) 174, 424, 816
BshNI GGYRCC 1 cut(s) 65
BsiHKAI GWGCWC 1 cut(s) 672
BsiHKCI CYCGRG 2 cut(s) 40, 450
BsiSI CCGG 6 cut(s) 69, 84, 306, 324, 428, 770
BslFI GGGAC 5 cut(s) 50, 322, 577, 736, 743
BslI CCNNNNNNNGG 3 cut(s) 330, 573, 653
BsmAI GTCTC 1 cut(s) 894
BsmFI GGGAC 5 cut(s) 50, 322, 577, 736, 743
BsnI GGCC 3 cut(s) 174, 424, 816
BsoBI CYCGRG 2 cut(s) 40, 450
Bsp1286I GDGCHC 1 cut(s) 672
Bsp143I GATC 2 cut(s) 91, 882
Bsp1720I GCTNAGC 1 cut(s) 441
BspACI CCGC 4 cut(s) 171, 369, 530, 567
BspANI GGCC 3 cut(s) 174, 424, 816
BspCNI CTCAG 4 cut(s) 7, 74, 454, 562
BspFNI CGCG 3 cut(s) 21, 171, 530
BspHI TCATGA 1 cut(s) 664
BspLI GGNNCC 5 cut(s) 67, 93, 565, 636, 731
BspPI GGATC 3 cut(s) 86, 99, 890
BspT107I GGYRCC 1 cut(s) 65
BsrDI GCAATG 2 cut(s) 378, 565
BssECI CCNNGG 3 cut(s) 322, 733, 768
BssMI GATC 2 cut(s) 91, 882
BssSI CACGAG 1 cut(s) 328
Bst2BI CACGAG 1 cut(s) 328
Bst2UI CCWGG 2 cut(s) 96, 204
BstAPI GCANNNNNTGC 1 cut(s) 217
BstC8I GCNNGC 3 cut(s) 47, 213, 501
BstDEI CTNAG 4 cut(s) 15, 61, 441, 570
BstEII GGTNACC 1 cut(s) 431
BstF5I GGATG 1 cut(s) 340
BstFNI CGCG 3 cut(s) 21, 171, 530
BstHHI GCGC 2 cut(s) 21, 171
BstKTI GATC 2 cut(s) 94, 885
BstMAI GTCTC 1 cut(s) 894
BstMBI GATC 2 cut(s) 91, 882
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 6 cut(s) 94, 202, 305, 322, 427, 768
BstUI CGCG 3 cut(s) 21, 171, 530
BstV1I GCAGC 1 cut(s) 337
BstX2I RGATCY 1 cut(s) 91
BstYI RGATCY 1 cut(s) 91
BsuRI GGCC 3 cut(s) 174, 424, 816
BtrI CACGTC 1 cut(s) 109
BtsCI GGATG 1 cut(s) 340
Cac8I GCNNGC 3 cut(s) 47, 213, 501
CciI TCATGA 1 cut(s) 664
CfoI GCGC 2 cut(s) 21, 171
Cfr13I GGNCC 4 cut(s) 173, 564, 635, 730
Csp6I GTAC 3 cut(s) 253, 357, 627
CviAII CATG 8 cut(s) 46, 151, 212, 380, 437, 623, 665, 886
CviQI GTAC 3 cut(s) 253, 357, 627
DdeI CTNAG 4 cut(s) 15, 61, 441, 570
DpnI GATC 2 cut(s) 93, 884
DpnII GATC 2 cut(s) 91, 882
EaeI YGGCCR 1 cut(s) 814
Ecl136II GAGCTC 1 cut(s) 670
Eco147I AGGCCT 1 cut(s) 424
Eco24I GRGCYC 1 cut(s) 672
Eco47I GGWCC 3 cut(s) 564, 635, 730
Eco53kI GAGCTC 1 cut(s) 670
Eco88I CYCGRG 2 cut(s) 40, 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, 668, 889
FaqI GGGAC 5 cut(s) 50, 322, 577, 736, 743
FatI CATG 8 cut(s) 45, 150, 211, 379, 436, 622, 664, 885
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, 825
GlaI GCGC 2 cut(s) 20, 170
GluI GCNGC 3 cut(s) 6, 172, 351
GsuI CTGGAG 1 cut(s) 231
HaeIII GGCC 3 cut(s) 174, 424, 816
HapII CCGG 6 cut(s) 69, 84, 306, 324, 428, 770
HhaI GCGC 2 cut(s) 21, 171
Hin1II CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 668, 889
Hin6I GCGC 2 cut(s) 19, 169
HinP1I GCGC 2 cut(s) 19, 169
HinfI GANTC 6 cut(s) 38, 99, 141, 509, 619, 821
HpaII CCGG 6 cut(s) 69, 84, 306, 324, 428, 770
HphI GGTGA 4 cut(s) 425, 544, 635, 686
Hpy188I TCNGA 3 cut(s) 136, 589, 779
Hpy188III TCNNGA 5 cut(s) 145, 224, 248, 316, 665
HpyAV CCTTC 4 cut(s) 201, 353, 620, 671
HpyCH4IV ACGT 1 cut(s) 108
HpyCH4V TGCA 2 cut(s) 413, 521
HpyF10VI GCNNNNNNNGC 3 cut(s) 217, 488, 527
HpyF3I CTNAG 4 cut(s) 15, 61, 441, 570
HpySE526I ACGT 1 cut(s) 108
Hsp92II CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 668, 889
HspAI GCGC 2 cut(s) 19, 169
Kzo9I GATC 2 cut(s) 91, 882
Lsp1109I GCAGC 1 cut(s) 337
LweI GCATC 2 cut(s) 285, 325
MaeI CTAG 2 cut(s) 266, 825
MaeII ACGT 1 cut(s) 108
MaeIII GTNAC 1 cut(s) 431
MalI GATC 2 cut(s) 93, 884
MboI GATC 2 cut(s) 91, 882
MflI RGATCY 1 cut(s) 91
MhlI GDGCHC 1 cut(s) 672
MlsI TGGCCA 1 cut(s) 816
MluCI AATT 3 cut(s) 227, 402, 697
MluNI TGGCCA 1 cut(s) 816
MlyI GAGTC 3 cut(s) 32, 150, 503
MnlI CCTC 7 cut(s) 277, 281, 349, 435, 565, 676, 728
Mox20I TGGCCA 1 cut(s) 816
Mph1103I ATGCAT 1 cut(s) 415
MscI TGGCCA 1 cut(s) 816
MseI TTAA 3 cut(s) 474, 878, 898
MslI CAYNNNNRTG 1 cut(s) 86
Msp20I TGGCCA 1 cut(s) 816
MspA1I CMGCKG 1 cut(s) 569
MspI CCGG 6 cut(s) 69, 84, 306, 324, 428, 770
MspR9I CCNGG 6 cut(s) 96, 204, 307, 324, 429, 770
MvaI CCWGG 2 cut(s) 96, 204
MvnI CGCG 3 cut(s) 21, 171, 530
MwoI GCNNNNNNNGC 3 cut(s) 217, 488, 527
NciI CCSGG 4 cut(s) 307, 324, 429, 770
NdeI CATATG 1 cut(s) 615
NdeII GATC 2 cut(s) 91, 882
NlaIII CATG 8 cut(s) 49, 154, 215, 383, 440, 626, 668, 889
NlaIV GGNNCC 5 cut(s) 67, 93, 565, 636, 731
NmuCI GTSAC 1 cut(s) 431
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
PceI AGGCCT 1 cut(s) 424
PfeI GAWTC 3 cut(s) 99, 619, 821
PflMI CCANNNNNTGG 1 cut(s) 653
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 5 cut(s) 67, 93, 565, 636, 731
PspPI GGNCC 4 cut(s) 173, 564, 635, 730
PspXI VCTCGAGB 1 cut(s) 450
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 3 cut(s) 474, 878, 898
SatI GCNGC 3 cut(s) 6, 172, 351
Sau3AI GATC 2 cut(s) 91, 882
Sau96I GGNCC 4 cut(s) 173, 564, 635, 730
SchI GAGTC 3 cut(s) 32, 150, 503
ScrFI CCNGG 6 cut(s) 96, 204, 307, 324, 429, 770
SduI GDGCHC 1 cut(s) 672
SetI ASST 8 cut(s) 111, 292, 457, 501, 528, 597, 672, 712
SfaNI GCATC 2 cut(s) 285, 325
Sfr274I CTCGAG 1 cut(s) 450
SinI GGWCC 3 cut(s) 564, 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
SseBI AGGCCT 1 cut(s) 424
SsiI CCGC 4 cut(s) 171, 369, 530, 567
SspMI CTAG 2 cut(s) 266, 825
SstI GAGCTC 1 cut(s) 672
StuI AGGCCT 1 cut(s) 424
StyD4I CCNGG 6 cut(s) 94, 202, 305, 322, 427, 768
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 3 cut(s) 99, 619, 821
Tru1I TTAA 3 cut(s) 474, 878, 898
Tru9I TTAA 3 cut(s) 474, 878, 898
TseFI GTSAC 1 cut(s) 431
TseI GCWGC 2 cut(s) 5, 350
Tsp45I GTSAC 1 cut(s) 431
TspDTI ATGAA 7 cut(s) 276, 389, 539, 602, 632, 653, 767
TspGWI ACGGA 1 cut(s) 405
Van91I CCANNNNNTGG 1 cut(s) 653
VpaK11BI GGWCC 3 cut(s) 564, 635, 730
XceI RCATGY 3 cut(s) 49, 215, 383
XhoI CTCGAG 1 cut(s) 450
XspI CTAG 2 cut(s) 266, 825
Zsp2I ATGCAT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.