RLG00000015035

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000538
Physical Location & Seq
Forward (+)
60902811 .. 60905119
2309 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015035

Sequence Viewer

Length: 1101 bp
ATGGCAAGCAAAGCTGATCACTCTTTCTCTTCCCCTATGGTCAACTTTCAACCATGGTGCGATCACCTGGCTTGGCTGTCCTCTAATATCACTGACATTCCCTACCCTAATACTCCCTGCAGGAGATGCGGGCACCCAAATGAAAACTGGTTTTGTTTATGCTGTAAGACTGTCCTTTGTGGTCGTTATGACAACATGCACATGATTCAACATTACGAGCAGACAAATCATTCTCTTGTAATCAGCTGCAGCAATCTATTAGTTTGGTGTTACTCCTGCCACTCTTTTATAGATCATAAAGTGATTCCACAACTGAAGGCTGCACTGTTATTGTTAAATGCCTCCAAGGACCGTTCCTCATCAACCAAGCTAGAGAACCTCGATGGTCTAATTGCTAATGTAGATGATCTCATCTCTACATTTTCTGGCTTTGATCTTCATCAACTGGATACTCACTTCTGTGATGAAGTTGCAATGGCAAAGGAGGGACTCCAAAAGATATTTGACTGTGACTTGGAAGCTTTAGCTGATCCCAAAGTCCAAGAGGAGTTCCTTACTCATTCAGCCACACTTATTTCTGATGATTCTTGCCCAATAGACTTGAAGGTTAAACTTTTATCTTTCCAATCTAATCTCTCAGAGGAAATGTCTGCTTTCGTGGAAGCTCAACAGGAGTTGAATAAAGTGTCAGACCTATCAGCTTCACTTGCTGGGCAAAAGTTTGTGCTTGAATCGACCACTTCAAAGTATGCCGAAGTGAAAGCACTATTTCTTGCAGCAGACAAGAAACATGCCAAACTTACTGCCAAGATCAATGCTGCGTCGAAGGCTGGAATTGAATTGTTTGAAGATTTAGCCATTGTTCGGATGCGAAGGGCTGAGTTTGAAGAGAAATTGGGTACCATTGAGGGAGTAATTATCACTGCTAGAGATAGATTTGTCTCAGACTCTTCGAAGCTTTCTACAATAAAGGGATTGACCAATGCAGCTACCCTTTTAGTCACTCGACGAAAGTCAGCCTGGAATAGCTTAAGGATTACTTACTCAAATTTCGCATCACTTGGTCTGCATGATGAGGAAACTTATTTGGTGGGTTTCTAG
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

367

Amino Acids

40.88

Weight (kDa)

5.72

Isoelectric Point (pI)

39.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 40 - 100 2.2e-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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
Acc65I GGTACC 1 cut(s) 899
AccB1I GGYRCC 2 cut(s) 132, 899
AciI CCGC 1 cut(s) 129
AclWI GGATC 1 cut(s) 524
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 1 cut(s) 946
AlwI GGATC 1 cut(s) 524
ApeKI GCWGC 6 cut(s) 246, 249, 320, 776, 818, 986
ApoI RAATTY 1 cut(s) 1048
Asp718I GGTACC 1 cut(s) 899
AspS9I GGNCC 1 cut(s) 349
AsuHPI GGTGA 1 cut(s) 56
AsuII TTCGAA 1 cut(s) 953
AvaII GGWCC 1 cut(s) 349
BaeGI GKGCMC 1 cut(s) 135
BanI GGYRCC 2 cut(s) 132, 899
BbvI GCAGC 6 cut(s) 233, 261, 307, 788, 805, 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 1 cut(s) 946
BfaI CTAG 3 cut(s) 371, 927, 1099
BfmI CTRYAG 2 cut(s) 118, 247
BfrI CTTAAG 1 cut(s) 1030
BfuI GTATCC 1 cut(s) 442
BisI GCNGC 6 cut(s) 247, 250, 321, 777, 819, 987
BlsI GCNGC 6 cut(s) 248, 251, 322, 778, 820, 988
Bme1390I CCNGG 2 cut(s) 68, 1021
Bme18I GGWCC 1 cut(s) 349
BmgT120I GGNCC 1 cut(s) 349
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) 53, 345
Bsc4I CCNNNNNNNGG 1 cut(s) 864
Bse1I ACTGG 2 cut(s) 152, 450
Bse3DI GCAATG 1 cut(s) 480
Bse8I GATNNNNATC 1 cut(s) 438
BseBI CCWGG 2 cut(s) 68, 1021
BseDI CCNNGG 2 cut(s) 53, 345
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) 152, 450
BseRI GAGGAG 1 cut(s) 560
BseSI GKGCMC 1 cut(s) 135
BseXI GCAGC 6 cut(s) 233, 261, 307, 788, 805, 998
BseYI CCCAGC 1 cut(s) 710
BsgI GTGCAG 1 cut(s) 306
BshNI GGYRCC 2 cut(s) 132, 899
BslFI GGGAC 1 cut(s) 501
BslI CCNNNNNNNGG 1 cut(s) 864
BsmAI GTCTC 1 cut(s) 946
BsmFI GGGAC 1 cut(s) 501
Bsp119I TTCGAA 1 cut(s) 953
Bsp1286I GDGCHC 1 cut(s) 135
Bsp143I GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
Bsp19I CCATGG 1 cut(s) 53
BspACI CCGC 1 cut(s) 129
BspCNI CTCAG 3 cut(s) 650, 871, 956
BspLI GGNNCC 2 cut(s) 134, 901
BspMAI CTGCAG 2 cut(s) 122, 251
BspPI GGATC 1 cut(s) 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) 152, 450
BssECI CCNNGG 2 cut(s) 53, 345
BssMI GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
BssT1I CCWWGG 2 cut(s) 53, 345
Bst2UI CCWGG 2 cut(s) 68, 1021
Bst4CI ACNGT 4 cut(s) 172, 327, 353, 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
BstDSI CCRYGG 1 cut(s) 53
BstF5I GGATG 1 cut(s) 873
BstKTI GATC 7 cut(s) 19, 64, 295, 409, 436, 532, 813
BstMAI GTCTC 1 cut(s) 946
BstMBI GATC 7 cut(s) 16, 61, 292, 406, 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 6 cut(s) 233, 261, 307, 788, 805, 998
BsuI GTATCC 1 cut(s) 442
BtgI CCRYGG 1 cut(s) 53
BtsCI GGATG 1 cut(s) 873
BtsI GCAGTG 1 cut(s) 921
BtsIMutI CAGTG 3 cut(s) 90, 323, 921
Cac8I GCNNGC 2 cut(s) 7, 131
Cfr13I GGNCC 1 cut(s) 349
CseI GACGC 1 cut(s) 810
Csp6I GTAC 1 cut(s) 900
CviAII CATG 5 cut(s) 54, 196, 202, 791, 1070
CviQI GTAC 1 cut(s) 900
DdeI CTNAG 3 cut(s) 637, 879, 943
DpnI GATC 7 cut(s) 18, 63, 294, 408, 435, 531, 812
DpnII GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
Eam1104I CTCTTC 3 cut(s) 34, 882, 955
EarI CTCTTC 3 cut(s) 34, 882, 955
Eco130I CCWWGG 2 cut(s) 53, 345
Eco47I GGWCC 1 cut(s) 349
Eco57I CTGAAG 1 cut(s) 335
EcoRII CCWGG 2 cut(s) 66, 1019
EcoT14I CCWWGG 2 cut(s) 53, 345
ErhI CCWWGG 2 cut(s) 53, 345
FaeI CATG 5 cut(s) 57, 199, 205, 794, 1073
FalI AAGNNNNNCTT 2 cut(s) 1024, 1056
FaqI GGGAC 1 cut(s) 501
FatI CATG 5 cut(s) 53, 195, 201, 790, 1069
FauI CCCGC 1 cut(s) 122
FbaI TGATCA 1 cut(s) 16
Fnu4HI GCNGC 6 cut(s) 247, 250, 321, 777, 819, 987
FokI GGATG 1 cut(s) 880
Fsp4HI GCNGC 6 cut(s) 247, 250, 321, 777, 819, 987
FspBI CTAG 3 cut(s) 371, 927, 1099
GluI GCNGC 6 cut(s) 247, 250, 321, 777, 819, 987
GsaI CCCAGC 1 cut(s) 714
HgaI GACGC 1 cut(s) 810
Hin1II CATG 5 cut(s) 57, 199, 205, 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 5 cut(s) 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 4 cut(s) 172, 327, 353, 509
HpyCH4V TGCA 8 cut(s) 120, 199, 249, 323, 473, 776, 986, 1069
HpyF10VI GCNNNNNNNGC 4 cut(s) 11, 126, 707, 827
HpyF3I CTNAG 3 cut(s) 637, 879, 943
Hsp92II CATG 5 cut(s) 57, 199, 205, 794, 1073
KpnI GGTACC 1 cut(s) 903
Ksp22I TGATCA 1 cut(s) 16
Kzo9I GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
Lsp1109I GCAGC 6 cut(s) 233, 261, 307, 788, 805, 998
LweI GCATC 3 cut(s) 116, 858, 1064
MaeI CTAG 3 cut(s) 371, 927, 1099
MaeIII GTNAC 3 cut(s) 269, 509, 1000
MalI GATC 7 cut(s) 18, 63, 294, 408, 435, 531, 812
MboI GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
MboII GAAGA 5 cut(s) 21, 428, 860, 899, 942
MhlI GDGCHC 1 cut(s) 135
MluCI AATT 6 cut(s) 390, 834, 839, 893, 915, 1048
MlyI GAGTC 2 cut(s) 483, 941
MnlI CCTC 9 cut(s) 91, 352, 367, 389, 478, 538, 634, 901, 1069
MseI TTAA 3 cut(s) 335, 609, 1031
MslI CAYNNNNRTG 3 cut(s) 138, 200, 459
MspA1I CMGCKG 1 cut(s) 246
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
NcoI CCATGG 1 cut(s) 53
NdeII GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
NlaIII CATG 5 cut(s) 57, 199, 205, 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 6 cut(s) 248, 251, 322, 778, 820, 988
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
PspPI GGNCC 1 cut(s) 349
PstI CTGCAG 2 cut(s) 122, 251
PvuII CAGCTG 1 cut(s) 246
RsaI GTAC 1 cut(s) 901
RsaNI GTAC 1 cut(s) 900
RseI CAYNNNNRTG 3 cut(s) 138, 200, 459
SaqAI TTAA 3 cut(s) 335, 609, 1031
SatI GCNGC 6 cut(s) 247, 250, 321, 777, 819, 987
Sau3AI GATC 7 cut(s) 16, 61, 292, 406, 433, 529, 810
Sau96I GGNCC 1 cut(s) 349
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
SinI GGWCC 1 cut(s) 349
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 6 cut(s) 390, 834, 839, 893, 915, 1048
SsiI CCGC 1 cut(s) 129
SspMI CTAG 3 cut(s) 371, 927, 1099
StyD4I CCNGG 2 cut(s) 66, 1019
StyI CCWWGG 2 cut(s) 53, 345
TaaI ACNGT 4 cut(s) 172, 327, 353, 509
TaqI TCGA 5 cut(s) 381, 734, 824, 953, 1006
TasI AATT 6 cut(s) 390, 834, 839, 893, 915, 1048
TfiI GAWTC 4 cut(s) 205, 304, 584, 731
Tru1I TTAA 3 cut(s) 335, 609, 1031
Tru9I TTAA 3 cut(s) 335, 609, 1031
TscAI CASTG 3 cut(s) 97, 330, 928
TseFI GTSAC 2 cut(s) 509, 1000
TseI GCWGC 6 cut(s) 246, 249, 320, 776, 818, 986
Tsp45I GTSAC 2 cut(s) 509, 1000
TspDTI ATGAA 3 cut(s) 156, 428, 480
TspRI CASTG 3 cut(s) 97, 330, 928
Vha464I CTTAAG 1 cut(s) 1030
VpaK11BI GGWCC 1 cut(s) 349
XapI RAATTY 1 cut(s) 1048
XceI RCATGY 2 cut(s) 199, 794
XcmI CCANNNNNNNNNTGG 1 cut(s) 144
XspI CTAG 3 cut(s) 371, 927, 1099
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.