Rh6DG046900

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0014563
Physical Location & Seq
Reverse (-)
4981325 .. 4986997
5673 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG046900.1

Sequence Viewer

Length: 459 bp
ATGGAAGAGGACTCGTTTGGGGAGTGGCTATCAGAATCGTGCACAAACTTACAAGAACTGGAAAACCCAATTGTAGAAGACGACTTGGACTTGTTATATGGAGCTGAATCGGGTTGGGTCGATGCCCGCACATCCTGCGATCACCTGCCTTCTCTCTCCTCCGATCTCGTTCACATCCCCACCCCTGATACTCACTGCAACAGATGCCAGCACCCAAATGAGAACTGGTTGTGTTTATGCTGTAAGGAAGTCCTCTGCAGCCGTTTTGTAAACAAGCATATGCTGCAGCATTATCAGCAGATAAATCATTGTGTTGCTCTTAGCTACAGTGATCTTTCGGTTTGGTGTTTCTCCTGCGATGCATATTTAGATGCTCAATTGATCCCACAACTGCGGCCTGTATATGAAACTGCATACCTGCTGAAGTTTGGTGAGGCCCCGCCAATCCGTTCGGTTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000118 GO:0000302 GO:0000976 GO:0000977 GO:0000978 GO:0000987 GO:0001012 GO:0001067 GO:0001932 GO:0001934 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003824 GO:0004407 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005768 GO:0005770 GO:0005771 GO:0005829 GO:0005856 GO:0005874 GO:0005875 GO:0005886 GO:0005901 GO:0006325 GO:0006355 GO:0006464 GO:0006476 GO:0006508 GO:0006515 GO:0006807 GO:0006810 GO:0006886 GO:0006950 GO:0006979 GO:0006996 GO:0008013 GO:0008017 GO:0008092 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009636 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009966 GO:0009967 GO:0009987 GO:0010033 GO:0010035 GO:0010310 GO:0010468 GO:0010469 GO:0010506 GO:0010508 GO:0010556 GO:0010557 GO:0010558 GO:0010562 GO:0010604 GO:0010605 GO:0010629 GO:0010632 GO:0010634 GO:0010638 GO:0010646 GO:0010647 GO:0010727 GO:0010821 GO:0010822 GO:0010869 GO:0010870 GO:0010941 GO:0010942 GO:0012505 GO:0015031 GO:0015630 GO:0015631 GO:0015833 GO:0016020 GO:0016043 GO:0016234 GO:0016235 GO:0016239 GO:0016241 GO:0016569 GO:0016570 GO:0016575 GO:0016787 GO:0016810 GO:0016811 GO:0018193 GO:0018205 GO:0019213 GO:0019219 GO:0019220 GO:0019222 GO:0019538 GO:0019899 GO:0022607 GO:0023051 GO:0023056 GO:0030030 GO:0030031 GO:0030162 GO:0030163 GO:0030334 GO:0030335 GO:0030424 GO:0030425 GO:0031072 GO:0031252 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031331 GO:0031334 GO:0031399 GO:0031401 GO:0031410 GO:0031593 GO:0031625 GO:0031647 GO:0031974 GO:0031981 GO:0031982 GO:0032268 GO:0032269 GO:0032270 GO:0032418 GO:0032459 GO:0032461 GO:0032879 GO:0032886 GO:0032991 GO:0033036 GO:0033043 GO:0033135 GO:0033138 GO:0033143 GO:0033554 GO:0033558 GO:0034599 GO:0034613 GO:0034614 GO:0034983 GO:0035601 GO:0035690 GO:0035966 GO:0035967 GO:0036211 GO:0036477 GO:0040012 GO:0040017 GO:0040029 GO:0042221 GO:0042325 GO:0042327 GO:0042493 GO:0042542 GO:0042826 GO:0042886 GO:0042903 GO:0042995 GO:0043005 GO:0043014 GO:0043025 GO:0043067 GO:0043068 GO:0043086 GO:0043170 GO:0043204 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043242 GO:0043244 GO:0043254 GO:0043412 GO:0043565 GO:0044085 GO:0044087 GO:0044089 GO:0044092 GO:0044212 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044297 GO:0044389 GO:0044422 GO:0044424 GO:0044425 GO:0044428 GO:0044430 GO:0044444 GO:0044446 GO:0044451 GO:0044459 GO:0044463 GO:0044464 GO:0044782 GO:0044853 GO:0044877 GO:0045121 GO:0045184 GO:0045861 GO:0045892 GO:0045934 GO:0045937 GO:0046677 GO:0046907 GO:0048156 GO:0048471 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048583 GO:0048584 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051128 GO:0051129 GO:0051130 GO:0051171 GO:0051172 GO:0051173 GO:0051174 GO:0051179 GO:0051193 GO:0051195 GO:0051234 GO:0051239 GO:0051240 GO:0051246 GO:0051247 GO:0051248 GO:0051252 GO:0051253 GO:0051270 GO:0051272 GO:0051276 GO:0051341 GO:0051354 GO:0051603 GO:0051640 GO:0051641 GO:0051649 GO:0051716 GO:0051787 GO:0051788 GO:0051879 GO:0060255 GO:0060271 GO:0060632 GO:0060765 GO:0061734 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070301 GO:0070727 GO:0070840 GO:0070841 GO:0070842 GO:0070843 GO:0070844 GO:0070845 GO:0070846 GO:0070848 GO:0070887 GO:0070925 GO:0071236 GO:0071310 GO:0071702 GO:0071704 GO:0071705 GO:0071840 GO:0071944 GO:0080090 GO:0080134 GO:0080135 GO:0090034 GO:0090035 GO:0090042 GO:0097159 GO:0097237 GO:0097447 GO:0097458 GO:0097708 GO:0098589 GO:0098590 GO:0098732 GO:0098779 GO:0098780 GO:0098805 GO:0098857 GO:0099080 GO:0099081 GO:0099512 GO:0099513 GO:0120025 GO:0120031 GO:0120036 GO:0120038 GO:0140030 GO:0140096 GO:1900407 GO:1900409 GO:1901031 GO:1901033 GO:1901298 GO:1901300 GO:1901363 GO:1901524 GO:1901526 GO:1901564 GO:1901565 GO:1901575 GO:1901700 GO:1901701 GO:1902494 GO:1902679 GO:1902882 GO:1902884 GO:1903146 GO:1903201 GO:1903205 GO:1903209 GO:1903506 GO:1903507 GO:1903599 GO:1904923 GO:1904925 GO:1905206 GO:1990837 GO:2000112 GO:2000113 GO:2000145 GO:2000147 GO:2000377 GO:2000378 GO:2001023 GO:2001025 GO:2001038 GO:2001040 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
zf-UBP

Protein Analysis

152

Amino Acids

17.41

Weight (kDa)

4.53

Isoelectric Point (pI)

52.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 66 - 125 7.6e-18 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: 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)
AarI CACCTGC 1 cut(s) 153
Acc36I ACCTGC 2 cut(s) 153, 426
AciI CCGC 3 cut(s) 127, 394, 440
AclWI GGATC 1 cut(s) 376
AcuI CTGAAG 1 cut(s) 443
AluBI AGCT 2 cut(s) 104, 324
AluI AGCT 2 cut(s) 104, 324
Alw21I GWGCWC 1 cut(s) 44
Alw44I GTGCAC 1 cut(s) 40
AlwI GGATC 1 cut(s) 376
AoxI GGCC 2 cut(s) 395, 435
ApaLI GTGCAC 1 cut(s) 40
ApeKI GCWGC 3 cut(s) 258, 283, 286
AspS9I GGNCC 1 cut(s) 436
AsuHPI GGTGA 2 cut(s) 134, 443
BaeGI GKGCMC 1 cut(s) 44
BbsI GAAGAC 1 cut(s) 84
Bbv12I GWGCWC 1 cut(s) 44
BbvI GCAGC 3 cut(s) 270, 270, 298
BceAI ACGGC 1 cut(s) 246
BfmI CTRYAG 3 cut(s) 256, 284, 325
BfuAI ACCTGC 2 cut(s) 153, 426
BisI GCNGC 4 cut(s) 259, 284, 287, 395
BlsI GCNGC 4 cut(s) 260, 285, 288, 396
BmgT120I GGNCC 1 cut(s) 436
BmiI GGNNCC 1 cut(s) 438
BmsI GCATC 4 cut(s) 112, 194, 349, 361
BpiI GAAGAC 1 cut(s) 84
Bse1I ACTGG 2 cut(s) 63, 230
BseGI GGATG 2 cut(s) 131, 174
BseNI ACTGG 2 cut(s) 63, 230
BseRI GAGGAG 1 cut(s) 148
BseSI GKGCMC 1 cut(s) 44
BseXI GCAGC 3 cut(s) 270, 270, 298
BshFI GGCC 2 cut(s) 397, 437
BsiHKAI GWGCWC 1 cut(s) 44
BsnI GGCC 2 cut(s) 397, 437
Bsp1286I GDGCHC 1 cut(s) 44
Bsp143I GATC 4 cut(s) 139, 163, 331, 381
BspACI CCGC 3 cut(s) 127, 394, 440
BspANI GGCC 2 cut(s) 397, 437
BspLI GGNNCC 1 cut(s) 438
BspMAI CTGCAG 2 cut(s) 260, 288
BspMI ACCTGC 2 cut(s) 153, 426
BspPI GGATC 1 cut(s) 376
BsrI ACTGG 2 cut(s) 63, 230
BssMI GATC 4 cut(s) 139, 163, 331, 381
Bst4CI ACNGT 1 cut(s) 329
BstAPI GCANNNNNTGC 3 cut(s) 135, 204, 283
BstC8I GCNNGC 2 cut(s) 127, 209
BstDEI CTNAG 1 cut(s) 320
BstF5I GGATG 2 cut(s) 131, 174
BstKTI GATC 4 cut(s) 142, 166, 334, 384
BstMBI GATC 4 cut(s) 139, 163, 331, 381
BstMWI GCNNNNNNNGC 4 cut(s) 135, 204, 283, 295
BstSFI CTRYAG 3 cut(s) 256, 284, 325
BstSLI GKGCMC 1 cut(s) 44
BstV1I GCAGC 3 cut(s) 270, 270, 298
BstV2I GAAGAC 1 cut(s) 84
BsuRI GGCC 2 cut(s) 397, 437
BtgZI GCGATG 1 cut(s) 372
BtsCI GGATG 2 cut(s) 131, 174
BtsI GCAGTG 1 cut(s) 193
BtsIMutI CAGTG 2 cut(s) 193, 334
BveI ACCTGC 2 cut(s) 153, 426
Cac8I GCNNGC 2 cut(s) 127, 209
Cfr13I GGNCC 1 cut(s) 436
CviJI RGCY 6 cut(s) 28, 104, 261, 324, 397, 437
CviKI_1 RGCY 6 cut(s) 28, 104, 261, 324, 397, 437
DdeI CTNAG 1 cut(s) 320
DpnI GATC 4 cut(s) 141, 165, 333, 383
DpnII GATC 4 cut(s) 139, 163, 331, 381
Eco57I CTGAAG 1 cut(s) 443
EcoO109I RGGNCCY 1 cut(s) 436
EcoT22I ATGCAT 1 cut(s) 364
FaiI YATR 9 cut(s) 97, 99, 238, 279, 281, 364, 403, 405, 415
FauI CCCGC 2 cut(s) 134, 447
FauNDI CATATG 1 cut(s) 279
Fnu4HI GCNGC 4 cut(s) 259, 284, 287, 395
FokI GGATG 2 cut(s) 118, 161
Fsp4HI GCNGC 4 cut(s) 259, 284, 287, 395
GluI GCNGC 4 cut(s) 259, 284, 287, 395
HaeIII GGCC 2 cut(s) 397, 437
HinfI GANTC 3 cut(s) 11, 35, 107
HphI GGTGA 2 cut(s) 134, 443
Hpy166II GTNNAC 3 cut(s) 42, 172, 271
Hpy188I TCNGA 2 cut(s) 34, 163
Hpy8I GTNNAC 3 cut(s) 42, 172, 271
HpyAV CCTTC 1 cut(s) 159
HpyCH4III ACNGT 1 cut(s) 329
HpyCH4V TGCA 6 cut(s) 42, 198, 258, 286, 362, 413
HpyF10VI GCNNNNNNNGC 4 cut(s) 135, 204, 283, 295
HpyF3I CTNAG 1 cut(s) 320
Kzo9I GATC 4 cut(s) 139, 163, 331, 381
LmnI GCTCC 1 cut(s) 101
LpnPI CCDG 9 cut(s) 44, 148, 158, 198, 211, 221, 367, 411, 431
Lsp1109I GCAGC 3 cut(s) 270, 270, 298
LweI GCATC 4 cut(s) 112, 194, 349, 361
MalI GATC 4 cut(s) 141, 165, 333, 383
MboI GATC 4 cut(s) 139, 163, 331, 381
MboII GAAGA 2 cut(s) 17, 89
MfeI CAATTG 2 cut(s) 69, 377
MhlI GDGCHC 1 cut(s) 44
MluCI AATT 2 cut(s) 69, 377
MlyI GAGTC 1 cut(s) 5
MnlI CCTC 3 cut(s) 169, 263, 427
Mph1103I ATGCAT 1 cut(s) 364
MseI TTAA 1 cut(s) 457
MslI CAYNNNNRTG 1 cut(s) 216
MunI CAATTG 2 cut(s) 69, 377
MwoI GCNNNNNNNGC 4 cut(s) 135, 204, 283, 295
NdeI CATATG 1 cut(s) 279
NdeII GATC 4 cut(s) 139, 163, 331, 381
NlaIV GGNNCC 1 cut(s) 438
NsiI ATGCAT 1 cut(s) 364
PaqCI CACCTGC 1 cut(s) 153
PfeI GAWTC 2 cut(s) 35, 107
PkrI GCNGC 4 cut(s) 260, 285, 288, 396
PleI GAGTC 1 cut(s) 5
PpsI GAGTC 1 cut(s) 5
PspN4I GGNNCC 1 cut(s) 438
PspPI GGNCC 1 cut(s) 436
PstI CTGCAG 2 cut(s) 260, 288
RseI CAYNNNNRTG 1 cut(s) 216
SaqAI TTAA 1 cut(s) 457
SatI GCNGC 4 cut(s) 259, 284, 287, 395
Sau3AI GATC 4 cut(s) 139, 163, 331, 381
Sau96I GGNCC 1 cut(s) 436
SchI GAGTC 1 cut(s) 5
SduI GDGCHC 1 cut(s) 44
SetI ASST 4 cut(s) 106, 147, 326, 420
SfaNI GCATC 4 cut(s) 112, 194, 349, 361
SfcI CTRYAG 3 cut(s) 256, 284, 325
SmiMI CAYNNNNRTG 1 cut(s) 216
Sse9I AATT 2 cut(s) 69, 377
SsiI CCGC 3 cut(s) 127, 394, 440
TaaI ACNGT 1 cut(s) 329
TaqI TCGA 1 cut(s) 120
TasI AATT 2 cut(s) 69, 377
TauI GCSGC 1 cut(s) 397
TfiI GAWTC 2 cut(s) 35, 107
Tru1I TTAA 1 cut(s) 457
Tru9I TTAA 1 cut(s) 457
TscAI CASTG 2 cut(s) 200, 334
TseI GCWGC 3 cut(s) 258, 283, 286
TspDTI ATGAA 1 cut(s) 420
TspGWI ACGGA 1 cut(s) 437
TspRI CASTG 2 cut(s) 200, 334
VneI GTGCAC 1 cut(s) 40
XcmI CCANNNNNNNNNTGG 1 cut(s) 222
Zsp2I ATGCAT 1 cut(s) 364
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.