RLG00000015030

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000538
Physical Location & Seq
Forward (+)
60862917 .. 60864683
1767 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015030

Sequence Viewer

Length: 1014 bp
ATGGTCCAGAGCCAGACACAATGCGCTCACCACCAGGCTGTTGTTTCCTGTGATCTCACTGGCGTTCCCAGCCCTGACACTCCCTGCAAAAGATGTCAGCATCCAAAAGAGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTAGTAGTAGTGTGTATGGACATTTCATTCAGCATTGTCTTTCTGTCAACTGCAGGCTCAAGACTTTTCTTTTTCTTAACAATTTAATTTACTGTTACTCCTGCCGTAAATTTCTAGATGCGGAAGTGATCCAAAAATTATGGGCCAAGGGTCGATCATCTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGATCTCTTGTCTAAGCCATTTCCTAGTATTCATCCACAGTTGGATGCTCAGTCGTTGGGAGGCCAGGATGAGCTTGCATTGGCCAAGGAGGGACTCCGGAAGATCTTTGATTGCGGGTTAAAGGCTCTAGCTGATCCTAAAGTGCAAGAAGAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCGGAGTCATGCCCCTCAGAATTGAAGGTTCACCTTTCATCATTCAGGTGCAATCTTTCCGAGGAAACGTCTGCTTTCGTCAAAGCTCAAGATGAGTTGAAGGTGGCCTCAGACTTATCAGCCTCAATCACTCAGAAGAAGTTTGTGGTGCTGCAACAAACTTCAAAGTATGATGAGGTGAAGAAAGAAATTGTCGCCTCGGACGAGAAAGTTGCTGGCTTCAAGGCAATGATCAAAGAGTTGGAAGAACAAATCAAAAGGTTGGAAGCTTGTTTAGCCACAGAAGAGAGCAACAGGGCAAAGATTGACGAGGCTATCAGTTCCATCGAGAAACAAGTCACCACCGTGAGAGATGGATTGGTCTCGGACTTGGCACAAGCGTCTTCCATGGAAGGAGCGACCCAAGCAGCTAACGAATTAGTAGCTCGAAAACAGTCGGACTGGGATAACCTAAAGCTTAGTTTTACTAAGTTTGCATGA
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

338

Amino Acids

37.42

Weight (kDa)

5.88

Isoelectric Point (pI)

42.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 29 - 88 7.8e-08 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) 447
AciI CCGC 3 cut(s) 266, 465, 536
AclWI GGATC 2 cut(s) 268, 479
AcoI YGGCCR 1 cut(s) 432
AcsI RAATTY 1 cut(s) 254
AgsI TTSAA 4 cut(s) 559, 634, 699, 757
AjnI CCWGG 2 cut(s) 33, 414
AleI CACNNNNGTG 1 cut(s) 878
AluBI AGCT 8 cut(s) 316, 424, 482, 620, 803, 944, 959, 991
AluI AGCT 8 cut(s) 316, 424, 482, 620, 803, 944, 959, 991
Alw26I GTCTC 1 cut(s) 901
AlwI GGATC 2 cut(s) 268, 479
Aor13HI TCCGGA 1 cut(s) 447
AoxI GGCC 4 cut(s) 288, 412, 432, 639
ApeKI GCWGC 2 cut(s) 685, 941
ApoI RAATTY 1 cut(s) 254
Asp700I GAANNNNTTC 1 cut(s) 504
AspLEI GCGC 1 cut(s) 26
AspS9I GGNCC 2 cut(s) 4, 288
AsuHPI GGTGA 4 cut(s) 20, 557, 724, 865
AvaII GGWCC 1 cut(s) 4
BalI TGGCCA 1 cut(s) 434
BbsI GAAGAC 1 cut(s) 909
BbvI GCAGC 2 cut(s) 672, 953
BccI CCATC 2 cut(s) 866, 881
BceAI ACGGC 1 cut(s) 234
BcgI CGANNNNNNTGC 2 cut(s) 728, 762
BciT130I CCWGG 2 cut(s) 35, 416
BclI TGATCA 1 cut(s) 765
BcoDI GTCTC 1 cut(s) 901
BfaI CTAG 4 cut(s) 260, 317, 375, 479
BfmI CTRYAG 2 cut(s) 145, 196
BglII AGATCT 1 cut(s) 453
BisI GCNGC 2 cut(s) 686, 942
BlsI GCNGC 2 cut(s) 687, 943
Bme1390I CCNGG 2 cut(s) 35, 416
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 2 cut(s) 4, 288
BmrFI CCNGG 2 cut(s) 35, 416
BmrI ACTGGG 1 cut(s) 985
BmsI GCATC 4 cut(s) 109, 253, 319, 385
BmuI ACTGGG 1 cut(s) 985
BpiI GAAGAC 1 cut(s) 909
BpuEI CTTGAG 2 cut(s) 188, 606
BsaI GGTCTC 1 cut(s) 901
BsaJI CCNNGG 5 cut(s) 291, 435, 594, 732, 921
BsaWI WCCGGW 1 cut(s) 447
BsaXI ACNNNNNCTCC 2 cut(s) 227, 257
Bse1I ACTGG 2 cut(s) 64, 980
Bse3DI GCAATG 2 cut(s) 339, 768
BseAI TCCGGA 1 cut(s) 447
BseBI CCWGG 2 cut(s) 35, 416
BseDI CCNNGG 5 cut(s) 291, 435, 594, 732, 921
BseGI GGATG 5 cut(s) 100, 308, 382, 400, 424
BseMI GCAATG 2 cut(s) 339, 768
BseMII CTCAG 5 cut(s) 413, 531, 564, 657, 680
BseNI ACTGG 2 cut(s) 64, 980
BseXI GCAGC 2 cut(s) 672, 953
BseYI CCCAGC 1 cut(s) 68
BshFI GGCC 4 cut(s) 290, 414, 434, 641
BsiSI CCGG 1 cut(s) 448
BslFI GGGAC 1 cut(s) 456
BsmAI GTCTC 1 cut(s) 901
BsmFI GGGAC 1 cut(s) 456
BsnI GGCC 4 cut(s) 290, 414, 434, 641
Bso31I GGTCTC 1 cut(s) 901
Bsp13I TCCGGA 1 cut(s) 447
Bsp143I GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
Bsp19I CCATGG 1 cut(s) 921
BspACI CCGC 3 cut(s) 266, 465, 536
BspANI GGCC 4 cut(s) 290, 414, 434, 641
BspCNI CTCAG 5 cut(s) 412, 530, 563, 656, 679
BspEI TCCGGA 1 cut(s) 447
BspMAI CTGCAG 1 cut(s) 200
BspPI GGATC 2 cut(s) 268, 479
BspTNI GGTCTC 1 cut(s) 901
BsrDI GCAATG 2 cut(s) 339, 768
BsrI ACTGG 2 cut(s) 64, 980
BssECI CCNNGG 5 cut(s) 291, 435, 594, 732, 921
BssMI GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
BssT1I CCWWGG 3 cut(s) 291, 435, 921
Bst2UI CCWGG 2 cut(s) 35, 416
Bst4CI ACNGT 4 cut(s) 239, 390, 880, 969
Bst6I CTCTTC 2 cut(s) 495, 813
BstC8I GCNNGC 3 cut(s) 200, 426, 751
BstDEI CTNAG 8 cut(s) 363, 399, 517, 550, 643, 666, 992, 1002
BstDSI CCRYGG 1 cut(s) 921
BstF5I GGATG 5 cut(s) 100, 308, 382, 400, 424
BstHHI GCGC 1 cut(s) 26
BstKTI GATC 7 cut(s) 55, 276, 302, 355, 456, 487, 768
BstMAI GTCTC 1 cut(s) 901
BstMBI GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
BstMWI GCNNNNNNNGC 3 cut(s) 69, 809, 938
BstNI CCWGG 2 cut(s) 35, 416
BstSCI CCNGG 2 cut(s) 33, 414
BstSFI CTRYAG 2 cut(s) 145, 196
BstV1I GCAGC 2 cut(s) 672, 953
BstV2I GAAGAC 1 cut(s) 909
BstX2I RGATCY 1 cut(s) 453
BstYI RGATCY 1 cut(s) 453
BsuRI GGCC 4 cut(s) 290, 414, 434, 641
BtgI CCRYGG 1 cut(s) 921
BtsCI GGATG 5 cut(s) 100, 308, 382, 400, 424
BtsI GCAGTG 1 cut(s) 524
BtsIMutI CAGTG 2 cut(s) 57, 524
Cac8I GCNNGC 3 cut(s) 200, 426, 751
CfoI GCGC 1 cut(s) 26
Cfr13I GGNCC 2 cut(s) 4, 288
CseI GACGC 1 cut(s) 903
CviAII CATG 3 cut(s) 543, 922, 1011
DdeI CTNAG 8 cut(s) 363, 399, 517, 550, 643, 666, 992, 1002
DpnI GATC 7 cut(s) 54, 275, 301, 354, 455, 486, 767
DpnII GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
EaeI YGGCCR 1 cut(s) 432
Eam1104I CTCTTC 2 cut(s) 495, 813
EarI CTCTTC 2 cut(s) 495, 813
Eco130I CCWWGG 3 cut(s) 291, 435, 921
Eco31I GGTCTC 1 cut(s) 901
Eco47I GGWCC 1 cut(s) 4
EcoRII CCWGG 2 cut(s) 33, 414
EcoT14I CCWWGG 3 cut(s) 291, 435, 921
ErhI CCWWGG 3 cut(s) 291, 435, 921
FaeI CATG 3 cut(s) 546, 925, 1014
FaiI YATR 6 cut(s) 162, 286, 544, 705, 923, 1012
FalI AAGNNNNNCTT 2 cut(s) 125, 157
FaqI GGGAC 1 cut(s) 456
FatI CATG 3 cut(s) 542, 921, 1010
FauI CCCGC 1 cut(s) 458
FbaI TGATCA 1 cut(s) 765
Fnu4HI GCNGC 2 cut(s) 686, 942
FokI GGATG 5 cut(s) 87, 295, 369, 407, 431
Fsp4HI GCNGC 2 cut(s) 686, 942
FspBI CTAG 4 cut(s) 260, 317, 375, 479
GlaI GCGC 1 cut(s) 25
GluI GCNGC 2 cut(s) 686, 942
GsaI CCCAGC 1 cut(s) 72
HaeIII GGCC 4 cut(s) 290, 414, 434, 641
HapII CCGG 1 cut(s) 448
HgaI GACGC 1 cut(s) 903
HhaI GCGC 1 cut(s) 26
Hin1II CATG 3 cut(s) 546, 925, 1014
Hin6I GCGC 1 cut(s) 24
HinP1I GCGC 1 cut(s) 24
HincII GTYRAC 1 cut(s) 193
HindII GTYRAC 1 cut(s) 193
HindIII AAGCTT 2 cut(s) 801, 989
HinfI GANTC 2 cut(s) 444, 539
HpaII CCGG 1 cut(s) 448
HphI GGTGA 4 cut(s) 20, 557, 724, 865
Hpy166II GTNNAC 2 cut(s) 193, 565
Hpy188I TCNGA 7 cut(s) 553, 595, 646, 669, 736, 901, 973
Hpy188III TCNNGA 6 cut(s) 7, 205, 260, 448, 623, 862
Hpy8I GTNNAC 2 cut(s) 193, 565
HpyAV CCTTC 3 cut(s) 553, 628, 920
HpyCH4III ACNGT 4 cut(s) 239, 390, 880, 969
HpyCH4IV ACGT 1 cut(s) 602
HpyCH4V TGCA 8 cut(s) 87, 198, 332, 428, 496, 585, 688, 1010
HpyF10VI GCNNNNNNNGC 3 cut(s) 69, 809, 938
HpyF3I CTNAG 8 cut(s) 363, 399, 517, 550, 643, 666, 992, 1002
HpySE526I ACGT 1 cut(s) 602
Hsp92II CATG 3 cut(s) 546, 925, 1014
HspAI GCGC 1 cut(s) 24
Kpn2I TCCGGA 1 cut(s) 447
Ksp22I TGATCA 1 cut(s) 765
Kzo9I GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
LmnI GCTCC 1 cut(s) 929
Lsp1109I GCAGC 2 cut(s) 672, 953
LweI GCATC 4 cut(s) 109, 253, 319, 385
MaeI CTAG 4 cut(s) 260, 317, 375, 479
MaeII ACGT 1 cut(s) 602
MaeIII GTNAC 2 cut(s) 239, 871
MalI GATC 7 cut(s) 54, 275, 301, 354, 455, 486, 767
MboI GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
MboII GAAGA 9 cut(s) 133, 297, 463, 512, 682, 727, 791, 830, 909
MflI RGATCY 1 cut(s) 453
MlsI TGGCCA 1 cut(s) 434
MluCI AATT 8 cut(s) 112, 226, 231, 254, 281, 554, 723, 950
MluNI TGGCCA 1 cut(s) 434
MlyI GAGTC 2 cut(s) 438, 548
MmeI TCCRAC 4 cut(s) 372, 756, 777, 951
MnlI CCTC 9 cut(s) 404, 433, 559, 589, 652, 667, 703, 742, 838
Mox20I TGGCCA 1 cut(s) 434
MroI TCCGGA 1 cut(s) 447
MroXI GAANNNNTTC 1 cut(s) 504
MscI TGGCCA 1 cut(s) 434
MseI TTAA 3 cut(s) 222, 230, 470
MslI CAYNNNNRTG 2 cut(s) 580, 878
Msp20I TGGCCA 1 cut(s) 434
MspA1I CMGCKG 1 cut(s) 536
MspI CCGG 1 cut(s) 448
MspR9I CCNGG 2 cut(s) 35, 416
MvaI CCWGG 2 cut(s) 35, 416
MwoI GCNNNNNNNGC 3 cut(s) 69, 809, 938
NcoI CCATGG 1 cut(s) 921
NdeII GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
NlaIII CATG 3 cut(s) 546, 925, 1014
NmuCI GTSAC 1 cut(s) 871
OliI CACNNNNGTG 1 cut(s) 878
PcsI WCGNNNNNNNCGW 1 cut(s) 735
PdmI GAANNNNTTC 1 cut(s) 504
PkrI GCNGC 2 cut(s) 687, 943
PleI GAGTC 2 cut(s) 438, 547
PpsI GAGTC 2 cut(s) 438, 547
Psp6I CCWGG 2 cut(s) 33, 414
PspFI CCCAGC 1 cut(s) 68
PspGI CCWGG 2 cut(s) 33, 414
PspPI GGNCC 2 cut(s) 4, 288
PstI CTGCAG 1 cut(s) 200
PsuI RGATCY 1 cut(s) 453
RseI CAYNNNNRTG 2 cut(s) 580, 878
SaqAI TTAA 3 cut(s) 222, 230, 470
SatI GCNGC 2 cut(s) 686, 942
Sau3AI GATC 7 cut(s) 52, 273, 299, 352, 453, 484, 765
Sau96I GGNCC 2 cut(s) 4, 288
SchI GAGTC 2 cut(s) 438, 548
ScrFI CCNGG 2 cut(s) 35, 416
SfaNI GCATC 4 cut(s) 109, 253, 319, 385
SfcI CTRYAG 2 cut(s) 145, 196
SinI GGWCC 1 cut(s) 4
SmiMI CAYNNNNRTG 2 cut(s) 580, 878
SmlI CTYRAG 2 cut(s) 203, 621
SmoI CTYRAG 2 cut(s) 203, 621
Sse9I AATT 8 cut(s) 112, 226, 231, 254, 281, 554, 723, 950
SsiI CCGC 3 cut(s) 266, 465, 536
SspMI CTAG 4 cut(s) 260, 317, 375, 479
StyD4I CCNGG 2 cut(s) 33, 414
StyI CCWWGG 3 cut(s) 291, 435, 921
TaaI ACNGT 4 cut(s) 239, 390, 880, 969
TaiI ACGT 1 cut(s) 605
TaqI TCGA 3 cut(s) 298, 861, 961
TasI AATT 8 cut(s) 112, 226, 231, 254, 281, 554, 723, 950
Tru1I TTAA 3 cut(s) 222, 230, 470
Tru9I TTAA 3 cut(s) 222, 230, 470
TscAI CASTG 2 cut(s) 64, 531
TseFI GTSAC 1 cut(s) 871
TseI GCWGC 2 cut(s) 685, 941
Tsp45I GTSAC 1 cut(s) 871
TspDTI ATGAA 4 cut(s) 160, 297, 371, 561
TspRI CASTG 2 cut(s) 64, 531
VpaK11BI GGWCC 1 cut(s) 4
XapI RAATTY 1 cut(s) 254
XbaI TCTAGA 1 cut(s) 259
XcmI CCANNNNNNNNNTGG 1 cut(s) 111
XmnI GAANNNNTTC 1 cut(s) 504
XspI CTAG 4 cut(s) 260, 317, 375, 479
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.