Rmu_sc0003898.1_g000003

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003898.1
OG0000538
Physical Location & Seq
Reverse (-)
6440 .. 6895
456 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003898.1_g000003.1.cds

Sequence Viewer

Length: 456 bp
atggttgatgtttctaatctcatttctgaaccatttcctagctttgattttcatcaaccagaggctaagtcatctgttggccaggacgagtatgcattggccatggaaggactccagaagatctttgatcgggggttagaagctttagctgatgaccgagtgcaaaaagagtttctcacttatacagccatgcttttatcagttgattcgtgcccatcgcagttgaagtctaacctttcatcattcacagaaaacctcccagaggaaatctccacttttgttcaagctaaaaaaaagttgaaggtggtctctgacctatcagcttcacttacccacaagaagtttatgctccggcaacagagttccaagtatactgagatgaagaaagaaagtattgcctcagaggagaaaattgccaacctcaagaccaggattcaaaagttggaagctctctag
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

151

Amino Acids

17.04

Weight (kDa)

5.76

Isoelectric Point (pI)

47.91

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)
AccI GTMKAC 1 cut(s) 371
AcoI YGGCCR 2 cut(s) 79, 99
AfiI CCNNNNNNNGG 1 cut(s) 262
AgsI TTSAA 4 cut(s) 226, 284, 301, 437
AjnI CCWGG 2 cut(s) 81, 428
AluBI AGCT 6 cut(s) 42, 143, 149, 287, 323, 449
AluI AGCT 6 cut(s) 42, 143, 149, 287, 323, 449
Alw26I GTCTC 1 cut(s) 313
AoxI GGCC 2 cut(s) 79, 99
Asp700I GAANNNNTTC 1 cut(s) 33
BaeGI GKGCMC 1 cut(s) 215
BalI TGGCCA 2 cut(s) 81, 101
BccI CCATC 1 cut(s) 223
BciT130I CCWGG 2 cut(s) 83, 430
BcoDI GTCTC 1 cut(s) 313
BfaI CTAG 2 cut(s) 39, 454
BglII AGATCT 1 cut(s) 120
Bme1390I CCNGG 2 cut(s) 83, 430
BmrFI CCNGG 2 cut(s) 83, 430
BplI GAGNNNNNCTC 2 cut(s) 254, 286
BpmI CTGGAG 1 cut(s) 98
BpuEI CTTGAG 1 cut(s) 407
BsaBI GATNNNNATC 1 cut(s) 51
BsaI GGTCTC 1 cut(s) 313
BsaJI CCNNGG 1 cut(s) 102
Bsc4I CCNNNNNNNGG 1 cut(s) 262
Bse8I GATNNNNATC 1 cut(s) 51
BseBI CCWGG 2 cut(s) 83, 430
BseDI CCNNGG 1 cut(s) 102
BseJI GATNNNNATC 1 cut(s) 51
BseLI CCNNNNNNNGG 1 cut(s) 262
BseMII CTCAG 2 cut(s) 366, 414
BseRI GAGGAG 1 cut(s) 419
BseSI GKGCMC 1 cut(s) 215
BshFI GGCC 2 cut(s) 81, 101
BsiSI CCGG 1 cut(s) 352
BslI CCNNNNNNNGG 1 cut(s) 262
BsmAI GTCTC 1 cut(s) 313
BsnI GGCC 2 cut(s) 81, 101
Bso31I GGTCTC 1 cut(s) 313
Bsp1286I GDGCHC 1 cut(s) 215
Bsp143I GATC 2 cut(s) 120, 127
Bsp19I CCATGG 1 cut(s) 102
BspANI GGCC 2 cut(s) 81, 101
BspCNI CTCAG 2 cut(s) 367, 413
BspTNI GGTCTC 1 cut(s) 313
BssECI CCNNGG 1 cut(s) 102
BssMI GATC 2 cut(s) 120, 127
BssNAI GTATAC 1 cut(s) 372
BssT1I CCWWGG 1 cut(s) 102
Bst1107I GTATAC 1 cut(s) 372
Bst2UI CCWGG 2 cut(s) 83, 430
BstDEI CTNAG 3 cut(s) 66, 375, 400
BstDSI CCRYGG 1 cut(s) 102
BstENI CCTNNNNNAGG 1 cut(s) 260
BstKTI GATC 2 cut(s) 123, 130
BstMAI GTCTC 1 cut(s) 313
BstMBI GATC 2 cut(s) 120, 127
BstNI CCWGG 2 cut(s) 83, 430
BstSCI CCNGG 2 cut(s) 81, 428
BstSLI GKGCMC 1 cut(s) 215
BstX2I RGATCY 1 cut(s) 120
BstYI RGATCY 1 cut(s) 120
BstZ17I GTATAC 1 cut(s) 372
BsuRI GGCC 2 cut(s) 81, 101
BtgI CCRYGG 1 cut(s) 102
BtgZI GCGATG 1 cut(s) 201
CviAII CATG 2 cut(s) 103, 190
DdeI CTNAG 3 cut(s) 66, 375, 400
DpnI GATC 2 cut(s) 122, 129
DpnII GATC 2 cut(s) 120, 127
EaeI YGGCCR 2 cut(s) 79, 99
Eco130I CCWWGG 1 cut(s) 102
Eco31I GGTCTC 1 cut(s) 313
EcoNI CCTNNNNNAGG 1 cut(s) 260
EcoRII CCWGG 2 cut(s) 81, 428
EcoT14I CCWWGG 1 cut(s) 102
EcoT22I ATGCAT 1 cut(s) 97
ErhI CCWWGG 1 cut(s) 102
FaeI CATG 2 cut(s) 106, 193
FaiI YATR 6 cut(s) 93, 104, 183, 191, 347, 372
FatI CATG 2 cut(s) 102, 189
FblI GTMKAC 1 cut(s) 371
FspBI CTAG 2 cut(s) 39, 454
GsuI CTGGAG 1 cut(s) 98
HaeIII GGCC 2 cut(s) 81, 101
HapII CCGG 1 cut(s) 352
Hin1II CATG 2 cut(s) 106, 193
HindIII AAGCTT 1 cut(s) 141
HinfI GANTC 3 cut(s) 111, 206, 433
HpaII CCGG 1 cut(s) 352
Hpy166II GTNNAC 1 cut(s) 372
Hpy188I TCNGA 3 cut(s) 28, 313, 403
Hpy188III TCNNGA 2 cut(s) 115, 424
Hpy8I GTNNAC 1 cut(s) 372
HpyAV CCTTC 2 cut(s) 101, 295
HpyCH4V TGCA 2 cut(s) 95, 163
HpyF3I CTNAG 3 cut(s) 66, 375, 400
Hsp92II CATG 2 cut(s) 106, 193
Kzo9I GATC 2 cut(s) 120, 127
LmnI GCTCC 1 cut(s) 354
LpnPI CCDG 8 cut(s) 68, 72, 95, 128, 273, 365, 415, 442
MaeI CTAG 2 cut(s) 39, 454
MalI GATC 2 cut(s) 122, 129
MboI GATC 2 cut(s) 120, 127
MboII GAAGA 2 cut(s) 130, 394
MflI RGATCY 1 cut(s) 120
MhlI GDGCHC 1 cut(s) 215
MlsI TGGCCA 2 cut(s) 81, 101
MluCI AATT 1 cut(s) 411
MluNI TGGCCA 2 cut(s) 81, 101
MlyI GAGTC 1 cut(s) 105
MmeI TCCRAC 1 cut(s) 423
MnlI CCTC 6 cut(s) 55, 256, 266, 397, 409, 431
Mox20I TGGCCA 2 cut(s) 81, 101
Mph1103I ATGCAT 1 cut(s) 97
MroXI GAANNNNTTC 1 cut(s) 33
MscI TGGCCA 2 cut(s) 81, 101
Msp20I TGGCCA 2 cut(s) 81, 101
MspI CCGG 1 cut(s) 352
MspR9I CCNGG 2 cut(s) 83, 430
MvaI CCWGG 2 cut(s) 83, 430
NcoI CCATGG 1 cut(s) 102
NdeII GATC 2 cut(s) 120, 127
NlaIII CATG 2 cut(s) 106, 193
NsiI ATGCAT 1 cut(s) 97
PdmI GAANNNNTTC 1 cut(s) 33
PfeI GAWTC 2 cut(s) 206, 433
PleI GAGTC 1 cut(s) 105
PpsI GAGTC 1 cut(s) 105
Psp6I CCWGG 2 cut(s) 81, 428
PspGI CCWGG 2 cut(s) 81, 428
PsuI RGATCY 1 cut(s) 120
Sau3AI GATC 2 cut(s) 120, 127
SchI GAGTC 1 cut(s) 105
ScrFI CCNGG 2 cut(s) 83, 430
SduI GDGCHC 1 cut(s) 215
SmlI CTYRAG 1 cut(s) 422
SmoI CTYRAG 1 cut(s) 422
Sse9I AATT 1 cut(s) 411
SspMI CTAG 2 cut(s) 39, 454
StyD4I CCNGG 2 cut(s) 81, 428
StyI CCWWGG 1 cut(s) 102
TaqII GACCGA 1 cut(s) 171
TasI AATT 1 cut(s) 411
TfiI GAWTC 2 cut(s) 206, 433
TspDTI ATGAA 3 cut(s) 41, 228, 395
XagI CCTNNNNNAGG 1 cut(s) 260
XmiI GTMKAC 1 cut(s) 371
XmnI GAANNNNTTC 1 cut(s) 33
XspI CTAG 2 cut(s) 39, 454
Zsp2I ATGCAT 1 cut(s) 97
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.