Rroxscaffold_7G00211960

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000538
Physical Location & Seq
Forward (+)
62396957 .. 62398067
1111 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00211960.1

Sequence Viewer

Length: 315 bp
ATGTTAGATGCGCAAGTGATCCAACAATTGTGGGCCAATAAGCAGAGTCGATCATCTTCAGCCAAGCTTGAGAGCATTGATGCAAAGGTTGTTGATGTTACCGATCTCTTGTCCAAGCCATTTCCTACCATCAATGTTCATCCACAGCTGGATACTCCATTGTTTGTTGGCCAAGACGAGCTTGCCTTGGCTAAGGAGGGACTCCGGAATGTCTTTGATCGCGGGTTAAAAGCTCTAGCTGATCCCAAGGTGCAAGAAGAGTTTCTCCTTTACTCGGCCACACCGCTATCACCGAGTCATGCCCCTCGTAATTGA
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

104

Amino Acids

11.48

Weight (kDa)

5.57

Isoelectric Point (pI)

46.13

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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)
Acc16I TGCGCA 1 cut(s) 12
AccII CGCG 1 cut(s) 222
AccIII TCCGGA 1 cut(s) 204
AciI CCGC 2 cut(s) 222, 284
AclWI GGATC 2 cut(s) 13, 236
AcoI YGGCCR 2 cut(s) 169, 276
AcuI CTGAAG 1 cut(s) 42
AfiI CCNNNNNNNGG 1 cut(s) 274
AluBI AGCT 5 cut(s) 67, 148, 181, 233, 239
AluI AGCT 5 cut(s) 67, 148, 181, 233, 239
AlwI GGATC 2 cut(s) 13, 236
Aor13HI TCCGGA 1 cut(s) 204
AoxI GGCC 3 cut(s) 33, 169, 276
Asp700I GAANNNNTTC 1 cut(s) 261
AspLEI GCGC 1 cut(s) 13
AspS9I GGNCC 1 cut(s) 33
AsuHPI GGTGA 1 cut(s) 282
BalI TGGCCA 1 cut(s) 171
BccI CCATC 1 cut(s) 137
BciVI GTATCC 1 cut(s) 145
BfaI CTAG 1 cut(s) 236
BfuI GTATCC 1 cut(s) 145
BmgT120I GGNCC 1 cut(s) 33
BmsI GCATC 1 cut(s) 70
Bpu10I CCTNAGC 1 cut(s) 192
BpuEI CTTGAG 1 cut(s) 89
BsaJI CCNNGG 2 cut(s) 186, 246
BsaWI WCCGGW 1 cut(s) 204
Bsc4I CCNNNNNNNGG 1 cut(s) 274
BseAI TCCGGA 1 cut(s) 204
BseDI CCNNGG 2 cut(s) 186, 246
BseGI GGATG 1 cut(s) 139
BseLI CCNNNNNNNGG 1 cut(s) 274
Bsh1236I CGCG 1 cut(s) 222
BshFI GGCC 3 cut(s) 35, 171, 278
BsiSI CCGG 1 cut(s) 205
BslFI GGGAC 1 cut(s) 213
BslI CCNNNNNNNGG 1 cut(s) 274
BsmFI GGGAC 1 cut(s) 213
BsnI GGCC 3 cut(s) 35, 171, 278
Bsp13I TCCGGA 1 cut(s) 204
Bsp143I GATC 5 cut(s) 18, 50, 103, 217, 241
BspACI CCGC 2 cut(s) 222, 284
BspANI GGCC 3 cut(s) 35, 171, 278
BspEI TCCGGA 1 cut(s) 204
BspFNI CGCG 1 cut(s) 222
BspPI GGATC 2 cut(s) 13, 236
BssECI CCNNGG 2 cut(s) 186, 246
BssMI GATC 5 cut(s) 18, 50, 103, 217, 241
BssT1I CCWWGG 2 cut(s) 186, 246
Bst6I CTCTTC 1 cut(s) 252
BstC8I GCNNGC 1 cut(s) 183
BstDEI CTNAG 1 cut(s) 192
BstF5I GGATG 1 cut(s) 139
BstFNI CGCG 1 cut(s) 222
BstHHI GCGC 1 cut(s) 13
BstKTI GATC 5 cut(s) 21, 53, 106, 220, 244
BstMBI GATC 5 cut(s) 18, 50, 103, 217, 241
BstUI CGCG 1 cut(s) 222
BsuI GTATCC 1 cut(s) 145
BsuRI GGCC 3 cut(s) 35, 171, 278
BtsCI GGATG 1 cut(s) 139
Cac8I GCNNGC 1 cut(s) 183
CfoI GCGC 1 cut(s) 13
Cfr13I GGNCC 1 cut(s) 33
CspCI CAANNNNNGTGG 2 cut(s) 11, 46
CviAII CATG 1 cut(s) 299
DdeI CTNAG 1 cut(s) 192
DpnI GATC 5 cut(s) 20, 52, 105, 219, 243
DpnII GATC 5 cut(s) 18, 50, 103, 217, 241
EaeI YGGCCR 2 cut(s) 169, 276
Eam1104I CTCTTC 1 cut(s) 252
EarI CTCTTC 1 cut(s) 252
Eco130I CCWWGG 2 cut(s) 186, 246
Eco57I CTGAAG 1 cut(s) 42
EcoT14I CCWWGG 2 cut(s) 186, 246
ErhI CCWWGG 2 cut(s) 186, 246
FaeI CATG 1 cut(s) 302
FaiI YATR 1 cut(s) 300
FalI AAGNNNNNCTT 2 cut(s) 165, 197
FaqI GGGAC 1 cut(s) 213
FatI CATG 1 cut(s) 298
FauI CCCGC 1 cut(s) 215
FokI GGATG 1 cut(s) 126
FspBI CTAG 1 cut(s) 236
FspI TGCGCA 1 cut(s) 12
GlaI GCGC 1 cut(s) 12
HaeIII GGCC 3 cut(s) 35, 171, 278
HapII CCGG 1 cut(s) 205
HhaI GCGC 1 cut(s) 13
Hin1II CATG 1 cut(s) 302
Hin6I GCGC 1 cut(s) 11
HinP1I GCGC 1 cut(s) 11
HindIII AAGCTT 1 cut(s) 65
HinfI GANTC 3 cut(s) 46, 201, 295
HpaII CCGG 1 cut(s) 205
HphI GGTGA 1 cut(s) 282
Hpy188III TCNNGA 1 cut(s) 205
HpyCH4V TGCA 2 cut(s) 83, 253
HpyF3I CTNAG 1 cut(s) 192
Hsp92II CATG 1 cut(s) 302
HspAI GCGC 1 cut(s) 11
Kpn2I TCCGGA 1 cut(s) 204
Kzo9I GATC 5 cut(s) 18, 50, 103, 217, 241
LpnPI CCDG 2 cut(s) 134, 218
LweI GCATC 1 cut(s) 70
MaeI CTAG 1 cut(s) 236
MaeIII GTNAC 1 cut(s) 97
MalI GATC 5 cut(s) 20, 52, 105, 219, 243
MboI GATC 5 cut(s) 18, 50, 103, 217, 241
MboII GAAGA 2 cut(s) 48, 269
MfeI CAATTG 1 cut(s) 26
MlsI TGGCCA 1 cut(s) 171
MluCI AATT 2 cut(s) 26, 310
MluNI TGGCCA 1 cut(s) 171
MlyI GAGTC 3 cut(s) 55, 195, 304
MmeI TCCRAC 1 cut(s) 46
MnlI CCTC 2 cut(s) 190, 315
Mox20I TGGCCA 1 cut(s) 171
MroI TCCGGA 1 cut(s) 204
MroXI GAANNNNTTC 1 cut(s) 261
MscI TGGCCA 1 cut(s) 171
MseI TTAA 1 cut(s) 227
Msp20I TGGCCA 1 cut(s) 171
MspA1I CMGCKG 1 cut(s) 148
MspI CCGG 1 cut(s) 205
MunI CAATTG 1 cut(s) 26
MvnI CGCG 1 cut(s) 222
NdeII GATC 5 cut(s) 18, 50, 103, 217, 241
NlaIII CATG 1 cut(s) 302
NmeAIII GCCGAG 1 cut(s) 254
NsbI TGCGCA 1 cut(s) 12
PdmI GAANNNNTTC 1 cut(s) 261
PleI GAGTC 3 cut(s) 54, 195, 303
PpsI GAGTC 3 cut(s) 54, 195, 303
PspPI GGNCC 1 cut(s) 33
PvuII CAGCTG 1 cut(s) 148
SaqAI TTAA 1 cut(s) 227
Sau3AI GATC 5 cut(s) 18, 50, 103, 217, 241
Sau96I GGNCC 1 cut(s) 33
SchI GAGTC 3 cut(s) 55, 195, 304
SetI ASST 7 cut(s) 69, 90, 150, 183, 235, 241, 252
SfaNI GCATC 1 cut(s) 70
SmlI CTYRAG 1 cut(s) 68
SmoI CTYRAG 1 cut(s) 68
Sse9I AATT 2 cut(s) 26, 310
SsiI CCGC 2 cut(s) 222, 284
SspMI CTAG 1 cut(s) 236
StyI CCWWGG 2 cut(s) 186, 246
TaqI TCGA 1 cut(s) 49
TasI AATT 2 cut(s) 26, 310
Tru1I TTAA 1 cut(s) 227
Tru9I TTAA 1 cut(s) 227
TspDTI ATGAA 1 cut(s) 128
XmnI GAANNNNTTC 1 cut(s) 261
XspI CTAG 1 cut(s) 236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.