Rw6G005230

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000538
Physical Location & Seq
Reverse (-)
8436219 .. 8438504
2286 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G005230.1

Sequence Viewer

Length: 1101 bp
ATGGCAAGCAAAGCTGATCACTCTTTCTCTTCCCCTATTGTCAACTTTCAAACATGGTGCGATCACCTGGCTTGGCTGTCCTCTGATATCGCTGACATTCCCTACCCTAATACTCCCTGCAGGAGATGCGGGCACCCAAATGAAAATTGGTTTTGTTTATGCTGTAAGACTGTCCTTTGTGGTCGTTATGACAACATGCACATGATTCAACATTACGAGGAGACAAATCATTCTCTTGTAATCAGCTGCAGCAATCTATTAGTTTGGTGTTACTCCTGCCATTCTTTTATAGATCATAAAGTGATTCCACAACTGAAGGCTGCACTGTTATTGTCAAATGCCTCCAAGGATCGTTCGTCATCAACCAAGCTAGAGAACCTCGATGGTCTAATTGCTGATGTAGATAATCTCATCTCTACATTTTCTGGCTTTGATCTTCATCAACTGGATACTCACTTCTGTGATGAACTTGCAATGGCCAAGGAGGGACTCCAAAAGATATTTGACTGTGACTTGGAAGCTTTAGCTGATCCCAAAGTCCAAGAGGAGTTCCTTACTCATTCAGCCACACTTATTTCTGATGATTCTTGCCCAATAGACTTGAAGGTTAAACTTTTATCTTTCCAATCTAATCTCTCAGAGGAAATGTCTGCTTTCGTGGAAGCTCAACATGAGTTGAATAAAGTGTCAGACCTATCAGCTTCACTTGCTGGGCAAAAGTTTGTGCTTGAATCGACCACTTCAAAGTATGCCGAAGTGAAAGCACTATTTCTTGCAGCAGACAAGAAACATGCCAAACTTACTGCCAAGATCAATGCTGCGTCGAAGGCTGGAATTGAATTGTTTGAAGATTTAGCCATTGTTCGGATGCGAAGGGCTGAGTTTGAAGAGAAATTGGGTACCATTGAGGGAGTAATTACCACTGGTAGAGATAGATTTGTCTCAGACTCTTCGAAGCTTTCTACAATAAAGGGATTGACCAATGCAGCTGCCCTTTTAGTCACTCGACGAAAGTCAGCCTGGAATAGCTTAAGGATTACTTACTCAAATTTTGCATCACTTGGTCTGCATGATGAGGAAACTTATTTGGTGGGTTTCTAG
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

366

Amino Acids

40.77

Weight (kDa)

5.6

Isoelectric Point (pI)

36.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 40 - 100 1.6e-17 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)
Acc65I GGTACC 1 cut(s) 899
AccB1I GGYRCC 2 cut(s) 132, 899
AciI CCGC 1 cut(s) 129
AclWI GGATC 2 cut(s) 357, 524
AcoI YGGCCR 1 cut(s) 477
AcsI RAATTY 1 cut(s) 1048
AcuI CTGAAG 1 cut(s) 335
AfaI GTAC 1 cut(s) 901
AfiI CCNNNNNNNGG 1 cut(s) 864
AflII CTTAAG 1 cut(s) 1030
AgsI TTSAA 9 cut(s) 50, 209, 604, 679, 731, 744, 839, 848, 887
AjnI CCWGG 2 cut(s) 66, 1019
AleI CACNNNNGTG 1 cut(s) 459
Alw26I GTCTC 2 cut(s) 215, 946
AlwI GGATC 2 cut(s) 357, 524
AoxI GGCC 1 cut(s) 477
ApeKI GCWGC 7 cut(s) 246, 249, 320, 776, 818, 986, 989
ApoI RAATTY 1 cut(s) 1048
Asp718I GGTACC 1 cut(s) 899
AsuHPI GGTGA 1 cut(s) 56
AsuII TTCGAA 1 cut(s) 953
BaeGI GKGCMC 1 cut(s) 135
BalI TGGCCA 1 cut(s) 479
BanI GGYRCC 2 cut(s) 132, 899
BbvI GCAGC 7 cut(s) 233, 261, 307, 788, 805, 976, 998
BccI CCATC 1 cut(s) 377
BciT130I CCWGG 2 cut(s) 68, 1021
BciVI GTATCC 1 cut(s) 442
BclI TGATCA 1 cut(s) 16
BcoDI GTCTC 2 cut(s) 215, 946
BfaI CTAG 2 cut(s) 371, 1099
BfmI CTRYAG 2 cut(s) 118, 247
BfrI CTTAAG 1 cut(s) 1030
BfuI GTATCC 1 cut(s) 442
BisI GCNGC 7 cut(s) 247, 250, 321, 777, 819, 987, 990
BlsI GCNGC 7 cut(s) 248, 251, 322, 778, 820, 988, 991
Bme1390I CCNGG 2 cut(s) 68, 1021
BmiI GGNNCC 2 cut(s) 134, 901
BmrFI CCNGG 2 cut(s) 68, 1021
BmsI GCATC 3 cut(s) 116, 858, 1064
BoxI GACNNNNGTC 1 cut(s) 1012
Bpu14I TTCGAA 1 cut(s) 953
BsaBI GATNNNNATC 1 cut(s) 438
BsaJI CCNNGG 2 cut(s) 345, 480
Bsc4I CCNNNNNNNGG 1 cut(s) 864
Bse1I ACTGG 2 cut(s) 450, 928
Bse3DI GCAATG 1 cut(s) 480
Bse8I GATNNNNATC 1 cut(s) 438
BseBI CCWGG 2 cut(s) 68, 1021
BseDI CCNNGG 2 cut(s) 345, 480
BseGI GGATG 1 cut(s) 873
BseJI GATNNNNATC 1 cut(s) 438
BseLI CCNNNNNNNGG 1 cut(s) 864
BseMI GCAATG 1 cut(s) 480
BseMII CTCAG 3 cut(s) 651, 870, 957
BseNI ACTGG 2 cut(s) 450, 928
BseRI GAGGAG 2 cut(s) 233, 560
BseSI GKGCMC 1 cut(s) 135
BseXI GCAGC 7 cut(s) 233, 261, 307, 788, 805, 976, 998
BseYI CCCAGC 1 cut(s) 710
BsgI GTGCAG 1 cut(s) 306
BshFI GGCC 1 cut(s) 479
BshNI GGYRCC 2 cut(s) 132, 899
BslFI GGGAC 1 cut(s) 501
BslI CCNNNNNNNGG 1 cut(s) 864
BsmAI GTCTC 2 cut(s) 215, 946
BsmFI GGGAC 1 cut(s) 501
BsnI GGCC 1 cut(s) 479
Bsp119I TTCGAA 1 cut(s) 953
Bsp1286I GDGCHC 1 cut(s) 135
Bsp143I GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
BspACI CCGC 1 cut(s) 129
BspANI GGCC 1 cut(s) 479
BspCNI CTCAG 3 cut(s) 650, 871, 956
BspLI GGNNCC 2 cut(s) 134, 901
BspMAI CTGCAG 2 cut(s) 122, 251
BspPI GGATC 2 cut(s) 357, 524
BspT104I TTCGAA 1 cut(s) 953
BspT107I GGYRCC 2 cut(s) 132, 899
BspTI CTTAAG 1 cut(s) 1030
BsrDI GCAATG 1 cut(s) 480
BsrI ACTGG 2 cut(s) 450, 928
BssECI CCNNGG 2 cut(s) 345, 480
BssMI GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
BssT1I CCWWGG 2 cut(s) 345, 480
Bst2UI CCWGG 2 cut(s) 68, 1021
Bst4CI ACNGT 3 cut(s) 172, 327, 509
Bst6I CTCTTC 3 cut(s) 34, 882, 955
BstAFI CTTAAG 1 cut(s) 1030
BstAPI GCANNNNNTGC 1 cut(s) 126
BstBI TTCGAA 1 cut(s) 953
BstC8I GCNNGC 2 cut(s) 7, 131
BstDEI CTNAG 3 cut(s) 637, 879, 943
BstF5I GGATG 1 cut(s) 873
BstKTI GATC 7 cut(s) 19, 64, 295, 352, 436, 532, 813
BstMAI GTCTC 2 cut(s) 215, 946
BstMBI GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
BstMWI GCNNNNNNNGC 4 cut(s) 11, 126, 707, 827
BstNI CCWGG 2 cut(s) 68, 1021
BstNSI RCATGY 2 cut(s) 199, 794
BstPAI GACNNNNGTC 1 cut(s) 1012
BstSCI CCNGG 2 cut(s) 66, 1019
BstSFI CTRYAG 2 cut(s) 118, 247
BstSLI GKGCMC 1 cut(s) 135
BstV1I GCAGC 7 cut(s) 233, 261, 307, 788, 805, 976, 998
BsuI GTATCC 1 cut(s) 442
BsuRI GGCC 1 cut(s) 479
BtsCI GGATG 1 cut(s) 873
BtsIMutI CAGTG 2 cut(s) 323, 921
Cac8I GCNNGC 2 cut(s) 7, 131
CseI GACGC 1 cut(s) 810
Csp6I GTAC 1 cut(s) 900
CviAII CATG 6 cut(s) 54, 196, 202, 671, 791, 1070
CviQI GTAC 1 cut(s) 900
DdeI CTNAG 3 cut(s) 637, 879, 943
DpnI GATC 7 cut(s) 18, 63, 294, 351, 435, 531, 812
DpnII GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
EaeI YGGCCR 1 cut(s) 477
Eam1104I CTCTTC 3 cut(s) 34, 882, 955
EarI CTCTTC 3 cut(s) 34, 882, 955
Eco130I CCWWGG 2 cut(s) 345, 480
Eco32I GATATC 1 cut(s) 88
Eco57I CTGAAG 1 cut(s) 335
EcoRII CCWGG 2 cut(s) 66, 1019
EcoRV GATATC 1 cut(s) 88
EcoT14I CCWWGG 2 cut(s) 345, 480
ErhI CCWWGG 2 cut(s) 345, 480
FaeI CATG 6 cut(s) 57, 199, 205, 674, 794, 1073
FalI AAGNNNNNCTT 2 cut(s) 1024, 1056
FaqI GGGAC 1 cut(s) 501
FatI CATG 6 cut(s) 53, 195, 201, 670, 790, 1069
FauI CCCGC 1 cut(s) 122
FbaI TGATCA 1 cut(s) 16
Fnu4HI GCNGC 7 cut(s) 247, 250, 321, 777, 819, 987, 990
FokI GGATG 1 cut(s) 880
Fsp4HI GCNGC 7 cut(s) 247, 250, 321, 777, 819, 987, 990
FspBI CTAG 2 cut(s) 371, 1099
GluI GCNGC 7 cut(s) 247, 250, 321, 777, 819, 987, 990
GsaI CCCAGC 1 cut(s) 714
HaeIII GGCC 1 cut(s) 479
HgaI GACGC 1 cut(s) 810
Hin1II CATG 6 cut(s) 57, 199, 205, 674, 794, 1073
HincII GTYRAC 1 cut(s) 43
HindII GTYRAC 1 cut(s) 43
HindIII AAGCTT 2 cut(s) 519, 956
HinfI GANTC 6 cut(s) 205, 304, 489, 584, 731, 947
HphI GGTGA 1 cut(s) 56
Hpy166II GTNNAC 1 cut(s) 43
Hpy188I TCNGA 6 cut(s) 85, 580, 640, 691, 867, 946
Hpy8I GTNNAC 1 cut(s) 43
Hpy99I CGWCG 2 cut(s) 826, 1011
HpyAV CCTTC 4 cut(s) 310, 598, 820, 867
HpyCH4III ACNGT 3 cut(s) 172, 327, 509
HpyCH4V TGCA 9 cut(s) 120, 199, 249, 323, 473, 776, 986, 1055, 1069
HpyF10VI GCNNNNNNNGC 4 cut(s) 11, 126, 707, 827
HpyF3I CTNAG 3 cut(s) 637, 879, 943
Hsp92II CATG 6 cut(s) 57, 199, 205, 674, 794, 1073
KpnI GGTACC 1 cut(s) 903
Ksp22I TGATCA 1 cut(s) 16
Kzo9I GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
Lsp1109I GCAGC 7 cut(s) 233, 261, 307, 788, 805, 976, 998
LweI GCATC 3 cut(s) 116, 858, 1064
MaeI CTAG 2 cut(s) 371, 1099
MaeIII GTNAC 3 cut(s) 269, 509, 1000
MalI GATC 7 cut(s) 18, 63, 294, 351, 435, 531, 812
MboI GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
MboII GAAGA 5 cut(s) 21, 428, 860, 899, 942
MhlI GDGCHC 1 cut(s) 135
MlsI TGGCCA 1 cut(s) 479
MluCI AATT 7 cut(s) 145, 390, 834, 839, 893, 915, 1048
MluNI TGGCCA 1 cut(s) 479
MlyI GAGTC 2 cut(s) 483, 941
MnlI CCTC 9 cut(s) 91, 211, 352, 389, 478, 538, 634, 901, 1069
Mox20I TGGCCA 1 cut(s) 479
MscI TGGCCA 1 cut(s) 479
MseI TTAA 2 cut(s) 609, 1031
MslI CAYNNNNRTG 3 cut(s) 138, 200, 459
Msp20I TGGCCA 1 cut(s) 479
MspA1I CMGCKG 2 cut(s) 246, 989
MspCI CTTAAG 1 cut(s) 1030
MspR9I CCNGG 2 cut(s) 68, 1021
MvaI CCWGG 2 cut(s) 68, 1021
MwoI GCNNNNNNNGC 4 cut(s) 11, 126, 707, 827
NdeII GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
NlaIII CATG 6 cut(s) 57, 199, 205, 674, 794, 1073
NlaIV GGNNCC 2 cut(s) 134, 901
NmuCI GTSAC 2 cut(s) 509, 1000
NspI RCATGY 2 cut(s) 199, 794
NspV TTCGAA 1 cut(s) 953
OliI CACNNNNGTG 1 cut(s) 459
PfeI GAWTC 4 cut(s) 205, 304, 584, 731
PkrI GCNGC 7 cut(s) 248, 251, 322, 778, 820, 988, 991
PleI GAGTC 2 cut(s) 483, 941
PpsI GAGTC 2 cut(s) 483, 941
PshAI GACNNNNGTC 1 cut(s) 1012
Psp6I CCWGG 2 cut(s) 66, 1019
PspFI CCCAGC 1 cut(s) 710
PspGI CCWGG 2 cut(s) 66, 1019
PspN4I GGNNCC 2 cut(s) 134, 901
PstI CTGCAG 2 cut(s) 122, 251
PvuII CAGCTG 2 cut(s) 246, 989
RsaI GTAC 1 cut(s) 901
RsaNI GTAC 1 cut(s) 900
RseI CAYNNNNRTG 3 cut(s) 138, 200, 459
SaqAI TTAA 2 cut(s) 609, 1031
SatI GCNGC 7 cut(s) 247, 250, 321, 777, 819, 987, 990
Sau3AI GATC 7 cut(s) 16, 61, 292, 349, 433, 529, 810
SbfI CCTGCAGG 1 cut(s) 122
SchI GAGTC 2 cut(s) 483, 941
ScrFI CCNGG 2 cut(s) 68, 1021
SdaI CCTGCAGG 1 cut(s) 122
SduI GDGCHC 1 cut(s) 135
SfaNI GCATC 3 cut(s) 116, 858, 1064
SfcI CTRYAG 2 cut(s) 118, 247
SfuI TTCGAA 1 cut(s) 953
SmiMI CAYNNNNRTG 3 cut(s) 138, 200, 459
SmlI CTYRAG 1 cut(s) 1030
SmoI CTYRAG 1 cut(s) 1030
Sse8387I CCTGCAGG 1 cut(s) 122
Sse9I AATT 7 cut(s) 145, 390, 834, 839, 893, 915, 1048
SsiI CCGC 1 cut(s) 129
SspMI CTAG 2 cut(s) 371, 1099
StyD4I CCNGG 2 cut(s) 66, 1019
StyI CCWWGG 2 cut(s) 345, 480
TaaI ACNGT 3 cut(s) 172, 327, 509
TaqI TCGA 5 cut(s) 381, 734, 824, 953, 1006
TasI AATT 7 cut(s) 145, 390, 834, 839, 893, 915, 1048
TfiI GAWTC 4 cut(s) 205, 304, 584, 731
Tru1I TTAA 2 cut(s) 609, 1031
Tru9I TTAA 2 cut(s) 609, 1031
TscAI CASTG 2 cut(s) 330, 928
TseFI GTSAC 2 cut(s) 509, 1000
TseI GCWGC 7 cut(s) 246, 249, 320, 776, 818, 986, 989
Tsp45I GTSAC 2 cut(s) 509, 1000
TspDTI ATGAA 3 cut(s) 156, 428, 480
TspRI CASTG 2 cut(s) 330, 928
Vha464I CTTAAG 1 cut(s) 1030
XapI RAATTY 1 cut(s) 1048
XceI RCATGY 2 cut(s) 199, 794
XcmI CCANNNNNNNNNTGG 1 cut(s) 144
XspI CTAG 2 cut(s) 371, 1099
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.