RchiOBHm_Chr6g0253281

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0014563
Physical Location & Seq
Reverse (-)
8408308 .. 8409262
955 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ22711

Sequence Viewer

Length: 249 bp
ATGGTAATCGAAGCTAACATTAACTCTGGCTTTTCTCTTAAGAGCCAGACACAGTGCGATCATCACTCAGCTTTTCTGTCCTGTGATCTCACTGGCGTTCCCAGCCCTGACACTCCTTGCAAAAGATGTCAGCGTCCCGGGCCAAATTGGTTTTGTTTGTCCTGTAAGGACGTCCTCTGTGATGTTAACAAACATGATGATGAGCATTATGTGCAGACAAAGCATTGTCTTCTAGTCGGCTGCAGGTAA
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

82

Amino Acids

9.18

Weight (kDa)

6.47

Isoelectric Point (pI)

55.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 40 - 80 5e-07 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: OG0014563)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G14825
fragaria_vesca FvH4_2g04060
malus_domestica MD05G1097100.v1.1
prunus_persica Prupe.8G141500_v2.0.a1 Prupe.8G141700_v2.0.a1
pyrus_communis pycom05g09570 pycom10g08890
rosa_chinensis RchiOBHm_Chr6g0253281 RchiOBHm_Chr6g0253411
rosa_laevigata RLG00000015021
rosa_multiflora Rmu_sc0001257.1_g000027 Rmu_sc0005439.1_g000006
rosa_roxburghii Rroxscaffold_7G00211920
rosa_rugosa Rorug05G0543800
rosa_samantha Rh6DG046900
rosa_wichuraiana Rw0G000060 Rw6G005300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 174
Acc36I ACCTGC 1 cut(s) 234
AcyI GRCGYC 1 cut(s) 171
AflII CTTAAG 1 cut(s) 38
AluBI AGCT 2 cut(s) 14, 71
AluI AGCT 2 cut(s) 14, 71
Ama87I CYCGRG 1 cut(s) 137
AoxI GGCC 1 cut(s) 140
ApeKI GCWGC 1 cut(s) 240
AspS9I GGNCC 1 cut(s) 140
AsuC2I CCSGG 2 cut(s) 138, 139
AvaI CYCGRG 1 cut(s) 137
BbsI GAAGAC 1 cut(s) 221
BbvI GCAGC 1 cut(s) 227
BcnI CCSGG 2 cut(s) 138, 139
BfaI CTAG 1 cut(s) 233
BfmI CTRYAG 1 cut(s) 241
BfrI CTTAAG 1 cut(s) 38
BfuAI ACCTGC 1 cut(s) 234
BisI GCNGC 1 cut(s) 241
BlsI GCNGC 1 cut(s) 242
Bme1390I CCNGG 2 cut(s) 138, 139
BmeT110I CYCGRG 1 cut(s) 137
BmgT120I GGNCC 1 cut(s) 140
BmrFI CCNGG 2 cut(s) 138, 139
BpiI GAAGAC 1 cut(s) 221
BpuMI CCSGG 2 cut(s) 138, 139
BsaHI GRCGYC 1 cut(s) 171
BsaJI CCNNGG 1 cut(s) 137
Bse1I ACTGG 1 cut(s) 97
BseDI CCNNGG 1 cut(s) 137
BseMII CTCAG 1 cut(s) 81
BseNI ACTGG 1 cut(s) 97
BseXI GCAGC 1 cut(s) 227
BseYI CCCAGC 1 cut(s) 101
BsgI GTGCAG 1 cut(s) 233
BshFI GGCC 1 cut(s) 142
BsiHKCI CYCGRG 1 cut(s) 137
BsiSI CCGG 1 cut(s) 138
BslFI GGGAC 1 cut(s) 120
BsmFI GGGAC 1 cut(s) 120
BsnI GGCC 1 cut(s) 142
BsoBI CYCGRG 1 cut(s) 137
Bsp143I GATC 2 cut(s) 58, 85
BspANI GGCC 1 cut(s) 142
BspCNI CTCAG 1 cut(s) 80
BspMAI CTGCAG 1 cut(s) 245
BspMI ACCTGC 1 cut(s) 234
BspTI CTTAAG 1 cut(s) 38
BsrI ACTGG 1 cut(s) 97
BssECI CCNNGG 1 cut(s) 137
BssMI GATC 2 cut(s) 58, 85
BssNI GRCGYC 1 cut(s) 171
Bst4CI ACNGT 1 cut(s) 54
BstACI GRCGYC 1 cut(s) 171
BstAFI CTTAAG 1 cut(s) 38
BstAPI GCANNNNNTGC 1 cut(s) 211
BstDEI CTNAG 1 cut(s) 67
BstKTI GATC 2 cut(s) 61, 88
BstMBI GATC 2 cut(s) 58, 85
BstMWI GCNNNNNNNGC 4 cut(s) 102, 139, 211, 220
BstSCI CCNGG 2 cut(s) 136, 137
BstSFI CTRYAG 1 cut(s) 241
BstV1I GCAGC 1 cut(s) 227
BstV2I GAAGAC 1 cut(s) 221
BsuRI GGCC 1 cut(s) 142
BtsIMutI CAGTG 2 cut(s) 59, 90
BveI ACCTGC 1 cut(s) 234
Cfr13I GGNCC 1 cut(s) 140
Cfr9I CCCGGG 1 cut(s) 137
CseI GACGC 1 cut(s) 122
CviAII CATG 1 cut(s) 194
CviJI RGCY 7 cut(s) 14, 30, 45, 71, 105, 142, 240
CviKI_1 RGCY 7 cut(s) 14, 30, 45, 71, 105, 142, 240
DdeI CTNAG 1 cut(s) 67
DpnI GATC 2 cut(s) 60, 87
DpnII GATC 2 cut(s) 58, 85
Eco88I CYCGRG 1 cut(s) 137
FaeI CATG 1 cut(s) 197
FaiI YATR 2 cut(s) 195, 210
FaqI GGGAC 1 cut(s) 120
FatI CATG 1 cut(s) 193
Fnu4HI GCNGC 1 cut(s) 241
Fsp4HI GCNGC 1 cut(s) 241
FspBI CTAG 1 cut(s) 233
GluI GCNGC 1 cut(s) 241
GsaI CCCAGC 1 cut(s) 105
HaeIII GGCC 1 cut(s) 142
HapII CCGG 1 cut(s) 138
HgaI GACGC 1 cut(s) 122
Hin1I GRCGYC 1 cut(s) 171
Hin1II CATG 1 cut(s) 197
HincII GTYRAC 1 cut(s) 187
HindII GTYRAC 1 cut(s) 187
HpaI GTTAAC 1 cut(s) 187
HpaII CCGG 1 cut(s) 138
Hpy166II GTNNAC 1 cut(s) 187
Hpy8I GTNNAC 1 cut(s) 187
HpyCH4III ACNGT 1 cut(s) 54
HpyCH4IV ACGT 1 cut(s) 171
HpyCH4V TGCA 3 cut(s) 120, 214, 243
HpyF10VI GCNNNNNNNGC 4 cut(s) 102, 139, 211, 220
HpyF3I CTNAG 1 cut(s) 67
HpySE526I ACGT 1 cut(s) 171
Hsp92I GRCGYC 1 cut(s) 171
Hsp92II CATG 1 cut(s) 197
KspAI GTTAAC 1 cut(s) 187
Kzo9I GATC 2 cut(s) 58, 85
LpnPI CCDG 9 cut(s) 12, 59, 78, 94, 115, 120, 151, 175, 229
Lsp1109I GCAGC 1 cut(s) 227
MaeI CTAG 1 cut(s) 233
MaeII ACGT 1 cut(s) 171
MalI GATC 2 cut(s) 60, 87
MboI GATC 2 cut(s) 58, 85
MboII GAAGA 1 cut(s) 221
MluCI AATT 1 cut(s) 145
MnlI CCTC 1 cut(s) 185
MseI TTAA 3 cut(s) 21, 39, 186
MslI CAYNNNNRTG 1 cut(s) 198
MspCI CTTAAG 1 cut(s) 38
MspI CCGG 1 cut(s) 138
MspR9I CCNGG 2 cut(s) 138, 139
MwoI GCNNNNNNNGC 4 cut(s) 102, 139, 211, 220
NciI CCSGG 2 cut(s) 138, 139
NdeII GATC 2 cut(s) 58, 85
NlaIII CATG 1 cut(s) 197
PkrI GCNGC 1 cut(s) 242
PspFI CCCAGC 1 cut(s) 101
PspPI GGNCC 1 cut(s) 140
PstI CTGCAG 1 cut(s) 245
RseI CAYNNNNRTG 1 cut(s) 198
SaqAI TTAA 3 cut(s) 21, 39, 186
SatI GCNGC 1 cut(s) 241
Sau3AI GATC 2 cut(s) 58, 85
Sau96I GGNCC 1 cut(s) 140
ScrFI CCNGG 2 cut(s) 138, 139
SetI ASST 4 cut(s) 16, 73, 174, 248
SfcI CTRYAG 1 cut(s) 241
SmaI CCCGGG 1 cut(s) 139
SmiMI CAYNNNNRTG 1 cut(s) 198
SmlI CTYRAG 1 cut(s) 38
SmoI CTYRAG 1 cut(s) 38
Sse9I AATT 1 cut(s) 145
SspMI CTAG 1 cut(s) 233
StyD4I CCNGG 2 cut(s) 136, 137
TaaI ACNGT 1 cut(s) 54
TaiI ACGT 1 cut(s) 174
TaqI TCGA 1 cut(s) 9
TasI AATT 1 cut(s) 145
Tru1I TTAA 3 cut(s) 21, 39, 186
Tru9I TTAA 3 cut(s) 21, 39, 186
TscAI CASTG 2 cut(s) 59, 97
TseI GCWGC 1 cut(s) 240
TspMI CCCGGG 1 cut(s) 137
TspRI CASTG 2 cut(s) 59, 97
Vha464I CTTAAG 1 cut(s) 38
XmaI CCCGGG 1 cut(s) 137
XspI CTAG 1 cut(s) 233
ZraI GACGTC 1 cut(s) 172
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.