RLG00000015034

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000538
Physical Location & Seq
Forward (+)
60896736 .. 60898607
1872 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015034

Sequence Viewer

Length: 903 bp
ATGACCCAGACACAGTGCGCCCACTCCTTGGCTTTCATTTCCTGTGACCCTTCTGTCGTTCCCAACCCTGACACTCCCTGCAAAAGATGTCAGCATCCAGGACCAAAAGGGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTTGTACTAGTGTGAAGGGACATTTTAGGCAGCATTATCAGGAGACAAAGCATTGTCTTTGTGTCAACTGCAGCACAAAATCAATTTACTGTTGCTCCTGCAGTAAAACTCTAGATGCGCAAGTGGTCCAACAATTATGGGTTAAGGGTCGATCCACTTCATCCAAACTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGACCTCTTGTCTAAGCCATTTCCTAGCATCAATGTTCATCCACGGTTGGATGCTCAGTCATTTGCAGGCCAGGATGAACTTGCATTGGCTAAGGAGGGACTGCAAAAGATCTTTGATAACGGATGCAATCTTCCGGAGGAAACCTCTGCTTTCATCAAAGCTCAAGATGAGTTGAAGGTGGCTTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTAGTGCGGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTTGCCTCGGACGAGAAAGTTTCTAACTTCAAGGCCATGATCAAAGAATTGAAAGCACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACGGAAGAGAGCAACAGAGCAAAGAATGATGAGGCTATTGATTCCATCGAGAAACAAGTCACCACCGCGAGAGATGGGTTGGTCTCGGACTTGGCACAAGTGTCTTCCATGGAAGGATCGACCCAAGCAGCTAACGAGTTAGTAGCTCGAAAACAGTCGGACTGGGATAACTTAAAGCTTAGTTTTACCAAGTTTGCATGA
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

301

Amino Acids

33.26

Weight (kDa)

6.96

Isoelectric Point (pI)

34.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 27 - 87 1.5e-13 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AasI GACNNNNNNGTC 1 cut(s) 53
Acc16I TGCGCA 1 cut(s) 264
AccB7I CCANNNNNTGG 1 cut(s) 28
AccII CGCG 1 cut(s) 770
AccIII TCCGGA 1 cut(s) 481
AciI CCGC 2 cut(s) 574, 768
AclWI GGATC 2 cut(s) 291, 826
AcuI CTGAAG 1 cut(s) 516
AfaI GTAC 1 cut(s) 151
AfiI CCNNNNNNNGG 1 cut(s) 28
AgsI TTSAA 4 cut(s) 523, 588, 646, 667
AhdI GACNNNNNGTC 1 cut(s) 355
AhlI ACTAGT 1 cut(s) 152
AjnI CCWGG 2 cut(s) 97, 417
AluBI AGCT 5 cut(s) 509, 692, 833, 848, 880
AluI AGCT 5 cut(s) 509, 692, 833, 848, 880
Alw26I GTCTC 2 cut(s) 182, 790
AlwI GGATC 2 cut(s) 291, 826
Aor13HI TCCGGA 1 cut(s) 481
AoxI GGCC 2 cut(s) 415, 648
ApeKI GCWGC 3 cut(s) 175, 216, 830
AspLEI GCGC 2 cut(s) 20, 265
AspS9I GGNCC 2 cut(s) 101, 271
AsuHPI GGTGA 2 cut(s) 613, 754
AvaII GGWCC 2 cut(s) 101, 271
BbsI GAAGAC 1 cut(s) 798
BbvI GCAGC 3 cut(s) 187, 228, 842
BccI CCATC 2 cut(s) 755, 770
BciT130I CCWGG 2 cut(s) 99, 419
BclI TGATCA 1 cut(s) 654
BcoDI GTCTC 2 cut(s) 182, 790
BcuI ACTAGT 1 cut(s) 152
BfaI CTAG 4 cut(s) 153, 257, 314, 372
BfmI CTRYAG 2 cut(s) 214, 244
BglII AGATCT 1 cut(s) 456
BisI GCNGC 4 cut(s) 176, 217, 575, 831
BlsI GCNGC 4 cut(s) 177, 218, 576, 832
Bme1390I CCNGG 2 cut(s) 99, 419
Bme18I GGWCC 2 cut(s) 101, 271
BmeRI GACNNNNNGTC 1 cut(s) 355
BmgT120I GGNCC 2 cut(s) 101, 271
BmrFI CCNGG 2 cut(s) 99, 419
BmrI ACTGGG 1 cut(s) 874
BmsI GCATC 6 cut(s) 103, 250, 316, 384, 388, 461
BmuI ACTGGG 1 cut(s) 874
BpiI GAAGAC 1 cut(s) 798
BplI GAGNNNNNCTC 2 cut(s) 476, 508
Bpu10I CCTNAGC 1 cut(s) 438
BpuEI CTTGAG 1 cut(s) 495
BsaI GGTCTC 1 cut(s) 790
BsaJI CCNNGG 5 cut(s) 27, 389, 621, 702, 810
BsaWI WCCGGW 1 cut(s) 481
BsaXI ACNNNNNCTCC 2 cut(s) 224, 254
Bsc4I CCNNNNNNNGG 1 cut(s) 28
Bse1I ACTGG 1 cut(s) 869
Bse3DI GCAATG 1 cut(s) 336
BseAI TCCGGA 1 cut(s) 481
BseBI CCWGG 2 cut(s) 99, 419
BseDI CCNNGG 5 cut(s) 27, 389, 621, 702, 810
BseGI GGATG 6 cut(s) 94, 305, 385, 403, 427, 476
BseLI CCNNNNNNNGG 1 cut(s) 28
BseMI GCAATG 1 cut(s) 336
BseMII CTCAG 2 cut(s) 416, 569
BseNI ACTGG 1 cut(s) 869
BseXI GCAGC 3 cut(s) 187, 228, 842
Bsh1236I CGCG 1 cut(s) 770
BshFI GGCC 2 cut(s) 417, 650
BsiSI CCGG 1 cut(s) 482
BslFI GGGAC 2 cut(s) 177, 459
BslI CCNNNNNNNGG 1 cut(s) 28
BsmAI GTCTC 2 cut(s) 182, 790
BsmFI GGGAC 2 cut(s) 177, 459
BsnI GGCC 2 cut(s) 417, 650
Bso31I GGTCTC 1 cut(s) 790
Bsp13I TCCGGA 1 cut(s) 481
Bsp143I GATC 4 cut(s) 296, 456, 654, 818
Bsp19I CCATGG 1 cut(s) 810
BspACI CCGC 2 cut(s) 574, 768
BspANI GGCC 2 cut(s) 417, 650
BspCNI CTCAG 2 cut(s) 415, 568
BspEI TCCGGA 1 cut(s) 481
BspFNI CGCG 1 cut(s) 770
BspMAI CTGCAG 2 cut(s) 218, 248
BspPI GGATC 2 cut(s) 291, 826
BspTNI GGTCTC 1 cut(s) 790
BsrDI GCAATG 1 cut(s) 336
BsrI ACTGG 1 cut(s) 869
BssECI CCNNGG 5 cut(s) 27, 389, 621, 702, 810
BssMI GATC 4 cut(s) 296, 456, 654, 818
BssT1I CCWWGG 2 cut(s) 27, 810
Bst2UI CCWGG 2 cut(s) 99, 419
Bst4CI ACNGT 4 cut(s) 15, 236, 393, 858
Bst6I CTCTTC 1 cut(s) 702
BstC8I GCNNGC 1 cut(s) 415
BstDEI CTNAG 5 cut(s) 360, 402, 438, 555, 881
BstDSI CCRYGG 3 cut(s) 389, 702, 810
BstF5I GGATG 6 cut(s) 94, 305, 385, 403, 427, 476
BstFNI CGCG 1 cut(s) 770
BstHHI GCGC 2 cut(s) 20, 265
BstKTI GATC 4 cut(s) 299, 459, 657, 821
BstMAI GTCTC 2 cut(s) 182, 790
BstMBI GATC 4 cut(s) 296, 456, 654, 818
BstMWI GCNNNNNNNGC 1 cut(s) 698
BstNI CCWGG 2 cut(s) 99, 419
BstSCI CCNGG 2 cut(s) 97, 417
BstSFI CTRYAG 2 cut(s) 214, 244
BstUI CGCG 1 cut(s) 770
BstV1I GCAGC 3 cut(s) 187, 228, 842
BstV2I GAAGAC 1 cut(s) 798
BstX2I RGATCY 1 cut(s) 456
BstYI RGATCY 1 cut(s) 456
BsuRI GGCC 2 cut(s) 417, 650
BtgI CCRYGG 3 cut(s) 389, 702, 810
BtsCI GGATG 6 cut(s) 94, 305, 385, 403, 427, 476
BtsIMutI CAGTG 1 cut(s) 20
Cac8I GCNNGC 1 cut(s) 415
CfoI GCGC 2 cut(s) 20, 265
Cfr13I GGNCC 2 cut(s) 101, 271
Csp6I GTAC 1 cut(s) 150
CviAII CATG 3 cut(s) 652, 811, 900
CviQI GTAC 1 cut(s) 150
DdeI CTNAG 5 cut(s) 360, 402, 438, 555, 881
DpnI GATC 4 cut(s) 298, 458, 656, 820
DpnII GATC 4 cut(s) 296, 456, 654, 818
DrdI GACNNNNNNGTC 1 cut(s) 53
DriI GACNNNNNGTC 1 cut(s) 355
DseDI GACNNNNNNGTC 1 cut(s) 53
Eam1104I CTCTTC 1 cut(s) 702
Eam1105I GACNNNNNGTC 1 cut(s) 355
EarI CTCTTC 1 cut(s) 702
Eco130I CCWWGG 2 cut(s) 27, 810
Eco31I GGTCTC 1 cut(s) 790
Eco47I GGWCC 2 cut(s) 101, 271
Eco57I CTGAAG 1 cut(s) 516
EcoRII CCWGG 2 cut(s) 97, 417
EcoT14I CCWWGG 2 cut(s) 27, 810
ErhI CCWWGG 2 cut(s) 27, 810
FaeI CATG 3 cut(s) 655, 814, 903
FaiI YATR 5 cut(s) 283, 594, 653, 812, 901
FalI AAGNNNNNCTT 2 cut(s) 125, 157
FaqI GGGAC 2 cut(s) 177, 459
FatI CATG 3 cut(s) 651, 810, 899
FbaI TGATCA 1 cut(s) 654
Fnu4HI GCNGC 4 cut(s) 176, 217, 575, 831
FokI GGATG 6 cut(s) 81, 292, 372, 410, 434, 483
Fsp4HI GCNGC 4 cut(s) 176, 217, 575, 831
FspBI CTAG 4 cut(s) 153, 257, 314, 372
FspI TGCGCA 1 cut(s) 264
GlaI GCGC 2 cut(s) 19, 264
GluI GCNGC 4 cut(s) 176, 217, 575, 831
HaeIII GGCC 2 cut(s) 417, 650
HapII CCGG 1 cut(s) 482
HhaI GCGC 2 cut(s) 20, 265
Hin1II CATG 3 cut(s) 655, 814, 903
Hin6I GCGC 2 cut(s) 18, 263
HinP1I GCGC 2 cut(s) 18, 263
HincII GTYRAC 1 cut(s) 211
HindII GTYRAC 1 cut(s) 211
HindIII AAGCTT 2 cut(s) 690, 878
HinfI GANTC 1 cut(s) 743
HpaII CCGG 1 cut(s) 482
HphI GGTGA 2 cut(s) 613, 754
Hpy166II GTNNAC 1 cut(s) 211
Hpy188I TCNGA 5 cut(s) 535, 558, 625, 790, 862
Hpy188III TCNNGA 5 cut(s) 185, 257, 482, 512, 751
Hpy8I GTNNAC 1 cut(s) 211
HpyAV CCTTC 4 cut(s) 60, 154, 517, 809
HpyCH4III ACNGT 4 cut(s) 15, 236, 393, 858
HpyCH4V TGCA 9 cut(s) 81, 216, 246, 329, 413, 431, 451, 474, 899
HpyF10VI GCNNNNNNNGC 1 cut(s) 698
HpyF3I CTNAG 5 cut(s) 360, 402, 438, 555, 881
Hsp92II CATG 3 cut(s) 655, 814, 903
HspAI GCGC 2 cut(s) 18, 263
Kpn2I TCCGGA 1 cut(s) 481
Ksp22I TGATCA 1 cut(s) 654
Kzo9I GATC 4 cut(s) 296, 456, 654, 818
LmnI GCTCC 1 cut(s) 245
Lsp1109I GCAGC 3 cut(s) 187, 228, 842
LweI GCATC 6 cut(s) 103, 250, 316, 384, 388, 461
MaeI CTAG 4 cut(s) 153, 257, 314, 372
MaeIII GTNAC 2 cut(s) 44, 760
MalI GATC 4 cut(s) 298, 458, 656, 820
MboI GATC 4 cut(s) 296, 456, 654, 818
MboII GAAGA 6 cut(s) 133, 470, 571, 616, 719, 798
MflI RGATCY 1 cut(s) 456
MluCI AATT 5 cut(s) 112, 228, 278, 612, 662
MmeI TCCRAC 4 cut(s) 298, 375, 666, 840
MnlI CCTC 8 cut(s) 362, 436, 478, 502, 556, 592, 631, 727
MroI TCCGGA 1 cut(s) 481
MseI TTAA 2 cut(s) 288, 875
MspI CCGG 1 cut(s) 482
MspR9I CCNGG 2 cut(s) 99, 419
MvaI CCWGG 2 cut(s) 99, 419
MvnI CGCG 1 cut(s) 770
MwoI GCNNNNNNNGC 1 cut(s) 698
NcoI CCATGG 1 cut(s) 810
NdeII GATC 4 cut(s) 296, 456, 654, 818
NlaIII CATG 3 cut(s) 655, 814, 903
NmuCI GTSAC 2 cut(s) 44, 760
NsbI TGCGCA 1 cut(s) 264
PfeI GAWTC 1 cut(s) 743
PflMI CCANNNNNTGG 1 cut(s) 28
PfoI TCCNGGA 1 cut(s) 97
PkrI GCNGC 4 cut(s) 177, 218, 576, 832
Psp6I CCWGG 2 cut(s) 97, 417
PspGI CCWGG 2 cut(s) 97, 417
PspPI GGNCC 2 cut(s) 101, 271
PstI CTGCAG 2 cut(s) 218, 248
PsuI RGATCY 1 cut(s) 456
RsaI GTAC 1 cut(s) 151
RsaNI GTAC 1 cut(s) 150
SaqAI TTAA 2 cut(s) 288, 875
SatI GCNGC 4 cut(s) 176, 217, 575, 831
Sau3AI GATC 4 cut(s) 296, 456, 654, 818
Sau96I GGNCC 2 cut(s) 101, 271
ScrFI CCNGG 2 cut(s) 99, 419
SfaNI GCATC 6 cut(s) 103, 250, 316, 384, 388, 461
SfcI CTRYAG 2 cut(s) 214, 244
SinI GGWCC 2 cut(s) 101, 271
SmlI CTYRAG 1 cut(s) 510
SmoI CTYRAG 1 cut(s) 510
SpeI ACTAGT 1 cut(s) 152
Sse9I AATT 5 cut(s) 112, 228, 278, 612, 662
SsiI CCGC 2 cut(s) 574, 768
SspMI CTAG 4 cut(s) 153, 257, 314, 372
StyD4I CCNGG 2 cut(s) 97, 417
StyI CCWWGG 2 cut(s) 27, 810
TaaI ACNGT 4 cut(s) 15, 236, 393, 858
TaqI TCGA 4 cut(s) 295, 750, 821, 850
TasI AATT 5 cut(s) 112, 228, 278, 612, 662
TatI WGTACW 1 cut(s) 149
TauI GCSGC 1 cut(s) 577
TfiI GAWTC 1 cut(s) 743
Tru1I TTAA 2 cut(s) 288, 875
Tru9I TTAA 2 cut(s) 288, 875
TscAI CASTG 1 cut(s) 20
TseFI GTSAC 2 cut(s) 44, 760
TseI GCWGC 3 cut(s) 175, 216, 830
Tsp45I GTSAC 2 cut(s) 44, 760
TspDTI ATGAA 5 cut(s) 25, 294, 374, 438, 490
TspGWI ACGGA 2 cut(s) 483, 719
TspRI CASTG 1 cut(s) 20
Van91I CCANNNNNTGG 1 cut(s) 28
VpaK11BI GGWCC 2 cut(s) 101, 271
XbaI TCTAGA 1 cut(s) 256
XcmI CCANNNNNNNNNTGG 1 cut(s) 111
XspI CTAG 4 cut(s) 153, 257, 314, 372
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.