RLG00000015021

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0014563
Physical Location & Seq
Forward (+)
60735306 .. 60736923
1618 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015021

Sequence Viewer

Length: 444 bp
ATGGCAACACACGGTGGCTCTTCCTCTTCTCCTCCTCCTCCTCAGGAAAACCCAATTGTAGAAGACGACTTAGACTTGTTATATGGAGCTGAATCGGGTTGGGTCGATGCCCGCACATCCTGCGATCACCTGCCTTCTCTTTCCTCCGATCTCGTTCACATCCCCACCCCTGATACTCACTGCAACAGATGCCAGCACCCAAGTGAGAACTGGTTATGTTTGTGCTGTAAGGAAGTCCTCTGCAGCCGTTTTGTAAACAAGCATATGCTGCAGCATTATCAGCAGATAAATCATTGTGTTGCTCTTAGCTACAGTGATCTCTCGGTTTGGTGTTTCTCCTGCGATGCATATTTAGATGCTCAGTTGATCCCACAACTGCGGCCTGTATATGAAACTGCATACCTGCTGAAGTTTGGTGAGACCCCTCCAATCCGTTCGGTTTAA
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

148

Amino Acids

16.5

Weight (kDa)

5.13

Isoelectric Point (pI)

56.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 61 - 120 7.8e-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
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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)
AarI CACCTGC 1 cut(s) 138
Acc36I ACCTGC 2 cut(s) 138, 411
AciI CCGC 2 cut(s) 112, 379
AclWI GGATC 1 cut(s) 361
AcuI CTGAAG 1 cut(s) 428
AdeI CACNNNGTG 1 cut(s) 14
AleI CACNNNNGTG 1 cut(s) 201
AluBI AGCT 2 cut(s) 89, 309
AluI AGCT 2 cut(s) 89, 309
Alw26I GTCTC 1 cut(s) 413
AlwI GGATC 1 cut(s) 361
AoxI GGCC 1 cut(s) 380
ApeKI GCWGC 3 cut(s) 243, 268, 271
AsuHPI GGTGA 2 cut(s) 119, 428
AxyI CCTNAGG 1 cut(s) 42
BbsI GAAGAC 1 cut(s) 69
BbvI GCAGC 3 cut(s) 255, 255, 283
BceAI ACGGC 1 cut(s) 231
BcoDI GTCTC 1 cut(s) 413
BfmI CTRYAG 3 cut(s) 241, 269, 310
BfuAI ACCTGC 2 cut(s) 138, 411
BisI GCNGC 4 cut(s) 244, 269, 272, 380
BlsI GCNGC 4 cut(s) 245, 270, 273, 381
BmsI GCATC 4 cut(s) 97, 179, 334, 346
BpiI GAAGAC 1 cut(s) 69
BsaI GGTCTC 1 cut(s) 413
Bse1I ACTGG 1 cut(s) 215
Bse21I CCTNAGG 1 cut(s) 42
BseGI GGATG 2 cut(s) 116, 159
BseMII CTCAG 2 cut(s) 56, 374
BseNI ACTGG 1 cut(s) 215
BseRI GAGGAG 4 cut(s) 21, 24, 27, 30
BseXI GCAGC 3 cut(s) 255, 255, 283
BshFI GGCC 1 cut(s) 382
BsmAI GTCTC 1 cut(s) 413
BsnI GGCC 1 cut(s) 382
Bso31I GGTCTC 1 cut(s) 413
Bsp143I GATC 4 cut(s) 124, 148, 316, 366
BspACI CCGC 2 cut(s) 112, 379
BspANI GGCC 1 cut(s) 382
BspCNI CTCAG 2 cut(s) 55, 373
BspMAI CTGCAG 2 cut(s) 245, 273
BspMI ACCTGC 2 cut(s) 138, 411
BspPI GGATC 1 cut(s) 361
BspQI GCTCTTC 1 cut(s) 25
BspTNI GGTCTC 1 cut(s) 413
BsrI ACTGG 1 cut(s) 215
BssMI GATC 4 cut(s) 124, 148, 316, 366
Bst4CI ACNGT 2 cut(s) 14, 314
Bst6I CTCTTC 2 cut(s) 25, 31
BstAPI GCANNNNNTGC 3 cut(s) 120, 189, 268
BstC8I GCNNGC 2 cut(s) 112, 194
BstDEI CTNAG 4 cut(s) 42, 70, 305, 360
BstF5I GGATG 2 cut(s) 116, 159
BstKTI GATC 4 cut(s) 127, 151, 319, 369
BstMAI GTCTC 1 cut(s) 413
BstMBI GATC 4 cut(s) 124, 148, 316, 366
BstMWI GCNNNNNNNGC 4 cut(s) 120, 189, 268, 280
BstSFI CTRYAG 3 cut(s) 241, 269, 310
BstV1I GCAGC 3 cut(s) 255, 255, 283
BstV2I GAAGAC 1 cut(s) 69
Bsu36I CCTNAGG 1 cut(s) 42
BsuRI GGCC 1 cut(s) 382
BtgZI GCGATG 1 cut(s) 357
BtsCI GGATG 2 cut(s) 116, 159
BtsI GCAGTG 1 cut(s) 178
BtsIMutI CAGTG 2 cut(s) 178, 319
BveI ACCTGC 2 cut(s) 138, 411
Cac8I GCNNGC 2 cut(s) 112, 194
CviJI RGCY 5 cut(s) 18, 89, 246, 309, 382
CviKI_1 RGCY 5 cut(s) 18, 89, 246, 309, 382
DdeI CTNAG 4 cut(s) 42, 70, 305, 360
DpnI GATC 4 cut(s) 126, 150, 318, 368
DpnII GATC 4 cut(s) 124, 148, 316, 366
DraIII CACNNNGTG 1 cut(s) 14
Eam1104I CTCTTC 2 cut(s) 25, 31
EarI CTCTTC 2 cut(s) 25, 31
Eco31I GGTCTC 1 cut(s) 413
Eco57I CTGAAG 1 cut(s) 428
Eco81I CCTNAGG 1 cut(s) 42
EcoT22I ATGCAT 1 cut(s) 349
FaiI YATR 9 cut(s) 82, 84, 217, 264, 266, 349, 388, 390, 400
FauI CCCGC 1 cut(s) 119
FauNDI CATATG 1 cut(s) 264
Fnu4HI GCNGC 4 cut(s) 244, 269, 272, 380
FokI GGATG 2 cut(s) 103, 146
Fsp4HI GCNGC 4 cut(s) 244, 269, 272, 380
GluI GCNGC 4 cut(s) 244, 269, 272, 380
HaeIII GGCC 1 cut(s) 382
HinfI GANTC 1 cut(s) 92
HphI GGTGA 2 cut(s) 119, 428
Hpy166II GTNNAC 2 cut(s) 157, 256
Hpy188I TCNGA 1 cut(s) 148
Hpy188III TCNNGA 1 cut(s) 44
Hpy8I GTNNAC 2 cut(s) 157, 256
HpyAV CCTTC 1 cut(s) 144
HpyCH4III ACNGT 2 cut(s) 14, 314
HpyCH4V TGCA 5 cut(s) 183, 243, 271, 347, 398
HpyF10VI GCNNNNNNNGC 4 cut(s) 120, 189, 268, 280
HpyF3I CTNAG 4 cut(s) 42, 70, 305, 360
Kzo9I GATC 4 cut(s) 124, 148, 316, 366
LguI GCTCTTC 1 cut(s) 25
LmnI GCTCC 1 cut(s) 86
LpnPI CCDG 9 cut(s) 29, 133, 143, 183, 196, 206, 352, 396, 416
Lsp1109I GCAGC 3 cut(s) 255, 255, 283
LweI GCATC 4 cut(s) 97, 179, 334, 346
MalI GATC 4 cut(s) 126, 150, 318, 368
MboI GATC 4 cut(s) 124, 148, 316, 366
MboII GAAGA 3 cut(s) 12, 18, 74
MfeI CAATTG 1 cut(s) 54
MluCI AATT 1 cut(s) 54
MnlI CCTC 8 cut(s) 34, 42, 45, 48, 51, 154, 248, 435
Mph1103I ATGCAT 1 cut(s) 349
MseI TTAA 1 cut(s) 442
MslI CAYNNNNRTG 1 cut(s) 201
MunI CAATTG 1 cut(s) 54
MwoI GCNNNNNNNGC 4 cut(s) 120, 189, 268, 280
NdeI CATATG 1 cut(s) 264
NdeII GATC 4 cut(s) 124, 148, 316, 366
NsiI ATGCAT 1 cut(s) 349
OliI CACNNNNGTG 1 cut(s) 201
PaqCI CACCTGC 1 cut(s) 138
PciSI GCTCTTC 1 cut(s) 25
PfeI GAWTC 1 cut(s) 92
PkrI GCNGC 4 cut(s) 245, 270, 273, 381
PstI CTGCAG 2 cut(s) 245, 273
RseI CAYNNNNRTG 1 cut(s) 201
SapI GCTCTTC 1 cut(s) 25
SaqAI TTAA 1 cut(s) 442
SatI GCNGC 4 cut(s) 244, 269, 272, 380
Sau3AI GATC 4 cut(s) 124, 148, 316, 366
SetI ASST 4 cut(s) 91, 132, 311, 405
SfaNI GCATC 4 cut(s) 97, 179, 334, 346
SfcI CTRYAG 3 cut(s) 241, 269, 310
SmiMI CAYNNNNRTG 1 cut(s) 201
Sse9I AATT 1 cut(s) 54
SsiI CCGC 2 cut(s) 112, 379
TaaI ACNGT 2 cut(s) 14, 314
TaqI TCGA 1 cut(s) 105
TasI AATT 1 cut(s) 54
TauI GCSGC 1 cut(s) 382
TfiI GAWTC 1 cut(s) 92
Tru1I TTAA 1 cut(s) 442
Tru9I TTAA 1 cut(s) 442
TscAI CASTG 2 cut(s) 185, 319
TseI GCWGC 3 cut(s) 243, 268, 271
TspDTI ATGAA 1 cut(s) 405
TspGWI ACGGA 1 cut(s) 422
TspRI CASTG 2 cut(s) 185, 319
XcmI CCANNNNNNNNNTGG 1 cut(s) 207
Zsp2I ATGCAT 1 cut(s) 349
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.