RchiOBHm_Chr6g0253341

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000538
Physical Location & Seq
Reverse (-)
8471992 .. 8473603
1612 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ22717

Sequence Viewer

Length: 579 bp
ATGAGCCAGAGCCAGACACAATGCGCTCACCACCAGGCTGTGGTTTCCTGTGATCTCACTGGCGTTCCCAGCCCTGACACTCCCTGCAAAAGGATTCTGTTCTTATTATACACCATCAAACATCCAAAAGAGAATTGGTTTTGTTTGTCCTGTAAGGACATCTTCTGTAGTAGTAGTGTGTATGGACATTTCATTCTGCATTATCAGGAGACAAAGCATTGTCTTTCTGTCAACTGCAGTAACAATTTAATTTACTGTTACGCTTGCCGTAAATTTCTAGATGCGGAAGTGATCCAAAAATTATGGGCCAAGGGTCGATCATCTTCATCCAAGCTAGAGAGCATTGATGCAATGATTGTTGATGTTATTGATCTCTTGTCTAAGCCAATTCCTAGTATCAATGTTCATCCACAGTTGGATGCTCAGTCGTTTGGAGGCCAGGATGAGCTTGCATTGGCTAAGGAGGGAGTCCGGAAGATCTTTGATTGCGGGTTAAAGGCTCTAGCTGATCCCAAAGTGCAAGAAGAGTTTCTCCTTTACTCAGCCACACTGCTATCAGCTGAGTCATGCCCCTCATAA
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

192

Amino Acids

21.36

Weight (kDa)

6.36

Isoelectric Point (pI)

49.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-UBP PF02148 43 - 94 2.8e-15 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: 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)
AccB7I CCANNNNNTGG 1 cut(s) 40
AccIII TCCGGA 1 cut(s) 471
AciI CCGC 2 cut(s) 284, 489
AclWI GGATC 2 cut(s) 286, 503
AcsI RAATTY 1 cut(s) 272
AfiI CCNNNNNNNGG 2 cut(s) 40, 90
AjnI CCWGG 2 cut(s) 33, 438
AluBI AGCT 4 cut(s) 334, 448, 506, 560
AluI AGCT 4 cut(s) 334, 448, 506, 560
Alw26I GTCTC 1 cut(s) 203
AlwI GGATC 2 cut(s) 286, 503
Aor13HI TCCGGA 1 cut(s) 471
AoxI GGCC 2 cut(s) 306, 436
ApoI RAATTY 1 cut(s) 272
Asp700I GAANNNNTTC 1 cut(s) 528
AspLEI GCGC 1 cut(s) 26
AspS9I GGNCC 1 cut(s) 306
AsuHPI GGTGA 1 cut(s) 20
BccI CCATC 1 cut(s) 122
BceAI ACGGC 1 cut(s) 252
BciT130I CCWGG 2 cut(s) 35, 440
BcoDI GTCTC 1 cut(s) 203
BfaI CTAG 4 cut(s) 278, 335, 393, 503
BfmI CTRYAG 2 cut(s) 166, 235
BglII AGATCT 1 cut(s) 477
Bme1390I CCNGG 2 cut(s) 35, 440
BmgT120I GGNCC 1 cut(s) 306
BmrFI CCNGG 2 cut(s) 35, 440
BmsI GCATC 3 cut(s) 271, 337, 409
Bpu10I CCTNAGC 1 cut(s) 459
BsaJI CCNNGG 1 cut(s) 309
BsaWI WCCGGW 1 cut(s) 471
Bsc4I CCNNNNNNNGG 2 cut(s) 40, 90
Bse1I ACTGG 1 cut(s) 64
Bse3DI GCAATG 1 cut(s) 357
BseAI TCCGGA 1 cut(s) 471
BseBI CCWGG 2 cut(s) 35, 440
BseDI CCNNGG 1 cut(s) 309
BseGI GGATG 5 cut(s) 121, 326, 406, 424, 448
BseLI CCNNNNNNNGG 2 cut(s) 40, 90
BseMI GCAATG 1 cut(s) 357
BseMII CTCAG 3 cut(s) 437, 552, 555
BseNI ACTGG 1 cut(s) 64
BseYI CCCAGC 1 cut(s) 68
BshFI GGCC 2 cut(s) 308, 438
BsiSI CCGG 1 cut(s) 472
BslI CCNNNNNNNGG 2 cut(s) 40, 90
BsmAI GTCTC 1 cut(s) 203
BsnI GGCC 2 cut(s) 308, 438
Bsp13I TCCGGA 1 cut(s) 471
Bsp143I GATC 6 cut(s) 52, 291, 317, 370, 477, 508
BspACI CCGC 2 cut(s) 284, 489
BspANI GGCC 2 cut(s) 308, 438
BspCNI CTCAG 3 cut(s) 436, 553, 554
BspEI TCCGGA 1 cut(s) 471
BspMAI CTGCAG 1 cut(s) 239
BspPI GGATC 2 cut(s) 286, 503
BsrDI GCAATG 1 cut(s) 357
BsrI ACTGG 1 cut(s) 64
BssECI CCNNGG 1 cut(s) 309
BssMI GATC 6 cut(s) 52, 291, 317, 370, 477, 508
BssT1I CCWWGG 1 cut(s) 309
Bst2UI CCWGG 2 cut(s) 35, 440
Bst4CI ACNGT 2 cut(s) 257, 414
Bst6I CTCTTC 1 cut(s) 519
BstC8I GCNNGC 2 cut(s) 265, 450
BstDEI CTNAG 5 cut(s) 381, 423, 459, 541, 561
BstENI CCTNNNNNAGG 1 cut(s) 88
BstF5I GGATG 5 cut(s) 121, 326, 406, 424, 448
BstHHI GCGC 1 cut(s) 26
BstKTI GATC 6 cut(s) 55, 294, 320, 373, 480, 511
BstMAI GTCTC 1 cut(s) 203
BstMBI GATC 6 cut(s) 52, 291, 317, 370, 477, 508
BstMWI GCNNNNNNNGC 1 cut(s) 69
BstNI CCWGG 2 cut(s) 35, 440
BstSCI CCNGG 2 cut(s) 33, 438
BstSFI CTRYAG 2 cut(s) 166, 235
BstX2I RGATCY 1 cut(s) 477
BstYI RGATCY 1 cut(s) 477
BsuRI GGCC 2 cut(s) 308, 438
BtsCI GGATG 5 cut(s) 121, 326, 406, 424, 448
BtsI GCAGTG 1 cut(s) 548
BtsIMutI CAGTG 2 cut(s) 57, 548
Cac8I GCNNGC 2 cut(s) 265, 450
CfoI GCGC 1 cut(s) 26
Cfr13I GGNCC 1 cut(s) 306
CviAII CATG 1 cut(s) 567
DdeI CTNAG 5 cut(s) 381, 423, 459, 541, 561
DpnI GATC 6 cut(s) 54, 293, 319, 372, 479, 510
DpnII GATC 6 cut(s) 52, 291, 317, 370, 477, 508
Eam1104I CTCTTC 1 cut(s) 519
EarI CTCTTC 1 cut(s) 519
Eco130I CCWWGG 1 cut(s) 309
EcoNI CCTNNNNNAGG 1 cut(s) 88
EcoRII CCWGG 2 cut(s) 33, 438
EcoT14I CCWWGG 1 cut(s) 309
ErhI CCWWGG 1 cut(s) 309
FaeI CATG 1 cut(s) 570
FaiI YATR 5 cut(s) 109, 183, 304, 568, 577
FalI AAGNNNNNCTT 2 cut(s) 146, 178
FatI CATG 1 cut(s) 566
FauI CCCGC 1 cut(s) 482
FokI GGATG 5 cut(s) 108, 313, 393, 431, 455
FspBI CTAG 4 cut(s) 278, 335, 393, 503
GlaI GCGC 1 cut(s) 25
GsaI CCCAGC 1 cut(s) 72
HaeIII GGCC 2 cut(s) 308, 438
HapII CCGG 1 cut(s) 472
HhaI GCGC 1 cut(s) 26
Hin1II CATG 1 cut(s) 570
Hin6I GCGC 1 cut(s) 24
HinP1I GCGC 1 cut(s) 24
HincII GTYRAC 1 cut(s) 232
HindII GTYRAC 1 cut(s) 232
HinfI GANTC 3 cut(s) 94, 468, 563
HpaII CCGG 1 cut(s) 472
HphI GGTGA 1 cut(s) 20
Hpy166II GTNNAC 1 cut(s) 232
Hpy188III TCNNGA 3 cut(s) 206, 278, 472
Hpy8I GTNNAC 1 cut(s) 232
HpyCH4III ACNGT 2 cut(s) 257, 414
HpyCH4V TGCA 6 cut(s) 87, 199, 237, 350, 452, 520
HpyF10VI GCNNNNNNNGC 1 cut(s) 69
HpyF3I CTNAG 5 cut(s) 381, 423, 459, 541, 561
Hsp92II CATG 1 cut(s) 570
HspAI GCGC 1 cut(s) 24
Kpn2I TCCGGA 1 cut(s) 471
Kzo9I GATC 6 cut(s) 52, 291, 317, 370, 477, 508
LweI GCATC 3 cut(s) 271, 337, 409
MaeI CTAG 4 cut(s) 278, 335, 393, 503
MaeIII GTNAC 2 cut(s) 239, 257
MalI GATC 6 cut(s) 54, 293, 319, 372, 479, 510
MboI GATC 6 cut(s) 52, 291, 317, 370, 477, 508
MboII GAAGA 4 cut(s) 154, 315, 487, 536
MflI RGATCY 1 cut(s) 477
MluCI AATT 6 cut(s) 133, 244, 249, 272, 299, 387
MlyI GAGTC 2 cut(s) 477, 572
MmeI TCCRAC 1 cut(s) 396
MnlI CCTC 2 cut(s) 428, 457
MroI TCCGGA 1 cut(s) 471
MroXI GAANNNNTTC 1 cut(s) 528
MseI TTAA 2 cut(s) 248, 494
MspA1I CMGCKG 1 cut(s) 560
MspI CCGG 1 cut(s) 472
MspR9I CCNGG 2 cut(s) 35, 440
MvaI CCWGG 2 cut(s) 35, 440
MwoI GCNNNNNNNGC 1 cut(s) 69
NdeII GATC 6 cut(s) 52, 291, 317, 370, 477, 508
NlaIII CATG 1 cut(s) 570
PdmI GAANNNNTTC 1 cut(s) 528
PfeI GAWTC 1 cut(s) 94
PflMI CCANNNNNTGG 1 cut(s) 40
PleI GAGTC 2 cut(s) 476, 571
PpsI GAGTC 2 cut(s) 476, 571
Psp6I CCWGG 2 cut(s) 33, 438
PspFI CCCAGC 1 cut(s) 68
PspGI CCWGG 2 cut(s) 33, 438
PspPI GGNCC 1 cut(s) 306
PstI CTGCAG 1 cut(s) 239
PsuI RGATCY 1 cut(s) 477
PvuII CAGCTG 1 cut(s) 560
SaqAI TTAA 2 cut(s) 248, 494
Sau3AI GATC 6 cut(s) 52, 291, 317, 370, 477, 508
Sau96I GGNCC 1 cut(s) 306
SchI GAGTC 2 cut(s) 477, 572
ScrFI CCNGG 2 cut(s) 35, 440
SetI ASST 4 cut(s) 336, 450, 508, 562
SfaNI GCATC 3 cut(s) 271, 337, 409
SfcI CTRYAG 2 cut(s) 166, 235
Sse9I AATT 6 cut(s) 133, 244, 249, 272, 299, 387
SsiI CCGC 2 cut(s) 284, 489
SspMI CTAG 4 cut(s) 278, 335, 393, 503
StyD4I CCNGG 2 cut(s) 33, 438
StyI CCWWGG 1 cut(s) 309
TaaI ACNGT 2 cut(s) 257, 414
TaqI TCGA 1 cut(s) 316
TasI AATT 6 cut(s) 133, 244, 249, 272, 299, 387
TfiI GAWTC 1 cut(s) 94
Tru1I TTAA 2 cut(s) 248, 494
Tru9I TTAA 2 cut(s) 248, 494
TscAI CASTG 2 cut(s) 64, 555
TspDTI ATGAA 3 cut(s) 181, 315, 395
TspRI CASTG 2 cut(s) 64, 555
Van91I CCANNNNNTGG 1 cut(s) 40
XagI CCTNNNNNAGG 1 cut(s) 88
XapI RAATTY 1 cut(s) 272
XbaI TCTAGA 1 cut(s) 277
XcmI CCANNNNNNNNNTGG 1 cut(s) 132
XmnI GAANNNNTTC 1 cut(s) 528
XspI CTAG 4 cut(s) 278, 335, 393, 503
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.