Rmu_sc0003855.1_g000011

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003855.1
OG0000538
Physical Location & Seq
Reverse (-)
41763 .. 42230
468 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003855.1_g000011.1.cds

Sequence Viewer

Length: 468 bp
atgcttttatcagttgattcgtgcccatcgcagttgaagtctaacctttcatcattcacagaaaacctcccagaggaaatctccacttttgttcaagctaaaaaaaagttgaaggtggtctctgacctatcagcttcacttacccacaagaagtttatgctccggcaacagagttccaagtatactgagatgaagaaagaaagtattgcctcggaggagaaaattgccaaccttaaggccaggattcaaaagttggaagcttctctagccacagaaaagagaaacaaggcaaagattgatgaggttttggattccatcgagacacaagtaatcactgccagagatggattggtctcagacttggcacaagtgtctgcgatggagggaacaacccaagctgctaacctagtagctcaacaacagtcggcgtggaatagcttaaggactacatttaccaagtttgcatga
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

155

Amino Acids

17.17

Weight (kDa)

9.19

Isoelectric Point (pI)

50.67

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) 182
AfiI CCNNNNNNNGG 1 cut(s) 73
AflII CTTAAG 2 cut(s) 233, 439
AgsI TTSAA 4 cut(s) 37, 95, 112, 248
AjnI CCWGG 1 cut(s) 239
AluBI AGCT 6 cut(s) 98, 134, 260, 398, 413, 438
AluI AGCT 6 cut(s) 98, 134, 260, 398, 413, 438
Alw26I GTCTC 3 cut(s) 124, 314, 358
AoxI GGCC 1 cut(s) 237
ApeKI GCWGC 1 cut(s) 398
BaeGI GKGCMC 1 cut(s) 26
BbvI GCAGC 1 cut(s) 385
BccI CCATC 4 cut(s) 34, 323, 338, 373
BciT130I CCWGG 1 cut(s) 241
BcoDI GTCTC 3 cut(s) 124, 314, 358
BfaI CTAG 2 cut(s) 266, 407
BfrI CTTAAG 2 cut(s) 233, 439
BisI GCNGC 1 cut(s) 399
BlsI GCNGC 1 cut(s) 400
Bme1390I CCNGG 1 cut(s) 241
BmrFI CCNGG 1 cut(s) 241
BplI GAGNNNNNCTC 2 cut(s) 65, 97
BsaI GGTCTC 2 cut(s) 124, 358
BsaJI CCNNGG 1 cut(s) 210
Bsc4I CCNNNNNNNGG 1 cut(s) 73
BseBI CCWGG 1 cut(s) 241
BseDI CCNNGG 1 cut(s) 210
BseLI CCNNNNNNNGG 1 cut(s) 73
BseMII CTCAG 2 cut(s) 177, 369
BseRI GAGGAG 1 cut(s) 230
BseSI GKGCMC 1 cut(s) 26
BseXI GCAGC 1 cut(s) 385
BshFI GGCC 1 cut(s) 239
BsiSI CCGG 1 cut(s) 163
BslI CCNNNNNNNGG 1 cut(s) 73
BsmAI GTCTC 3 cut(s) 124, 314, 358
BsnI GGCC 1 cut(s) 239
Bso31I GGTCTC 2 cut(s) 124, 358
Bsp1286I GDGCHC 1 cut(s) 26
BspANI GGCC 1 cut(s) 239
BspCNI CTCAG 2 cut(s) 178, 368
BspTI CTTAAG 2 cut(s) 233, 439
BspTNI GGTCTC 2 cut(s) 124, 358
BssECI CCNNGG 1 cut(s) 210
BssNAI GTATAC 1 cut(s) 183
Bst1107I GTATAC 1 cut(s) 183
Bst2UI CCWGG 1 cut(s) 241
Bst4CI ACNGT 1 cut(s) 423
BstAFI CTTAAG 2 cut(s) 233, 439
BstDEI CTNAG 2 cut(s) 186, 355
BstENI CCTNNNNNAGG 1 cut(s) 71
BstMAI GTCTC 3 cut(s) 124, 314, 358
BstMWI GCNNNNNNNGC 1 cut(s) 266
BstNI CCWGG 1 cut(s) 241
BstSCI CCNGG 1 cut(s) 239
BstSLI GKGCMC 1 cut(s) 26
BstV1I GCAGC 1 cut(s) 385
BstZ17I GTATAC 1 cut(s) 183
BsuRI GGCC 1 cut(s) 239
BtgZI GCGATG 2 cut(s) 12, 392
BtsI GCAGTG 1 cut(s) 333
BtsIMutI CAGTG 1 cut(s) 333
CviAII CATG 1 cut(s) 465
CviJI RGCY 8 cut(s) 98, 134, 239, 260, 269, 398, 413, 438
CviKI_1 RGCY 8 cut(s) 98, 134, 239, 260, 269, 398, 413, 438
DdeI CTNAG 2 cut(s) 186, 355
Eco31I GGTCTC 2 cut(s) 124, 358
EcoNI CCTNNNNNAGG 1 cut(s) 71
EcoRII CCWGG 1 cut(s) 239
FaeI CATG 1 cut(s) 468
FaiI YATR 3 cut(s) 158, 183, 466
FatI CATG 1 cut(s) 464
FblI GTMKAC 1 cut(s) 182
Fnu4HI GCNGC 1 cut(s) 399
Fsp4HI GCNGC 1 cut(s) 399
FspBI CTAG 2 cut(s) 266, 407
GluI GCNGC 1 cut(s) 399
HaeIII GGCC 1 cut(s) 239
HapII CCGG 1 cut(s) 163
Hin1II CATG 1 cut(s) 468
HindIII AAGCTT 1 cut(s) 258
HinfI GANTC 3 cut(s) 17, 244, 311
HpaII CCGG 1 cut(s) 163
Hpy166II GTNNAC 1 cut(s) 183
Hpy188I TCNGA 3 cut(s) 124, 214, 358
Hpy188III TCNNGA 1 cut(s) 319
Hpy8I GTNNAC 1 cut(s) 183
HpyAV CCTTC 1 cut(s) 106
HpyCH4III ACNGT 1 cut(s) 423
HpyCH4V TGCA 1 cut(s) 464
HpyF10VI GCNNNNNNNGC 1 cut(s) 266
HpyF3I CTNAG 2 cut(s) 186, 355
Hsp92II CATG 1 cut(s) 468
LmnI GCTCC 1 cut(s) 165
LpnPI CCDG 5 cut(s) 84, 176, 226, 253, 352
Lsp1109I GCAGC 1 cut(s) 385
MaeI CTAG 2 cut(s) 266, 407
MboII GAAGA 1 cut(s) 205
MhlI GDGCHC 1 cut(s) 26
MluCI AATT 1 cut(s) 222
MmeI TCCRAC 1 cut(s) 234
MnlI CCTC 6 cut(s) 67, 77, 208, 220, 295, 376
MseI TTAA 2 cut(s) 234, 440
MspCI CTTAAG 2 cut(s) 233, 439
MspI CCGG 1 cut(s) 163
MspR9I CCNGG 1 cut(s) 241
MvaI CCWGG 1 cut(s) 241
MwoI GCNNNNNNNGC 1 cut(s) 266
NlaIII CATG 1 cut(s) 468
PfeI GAWTC 3 cut(s) 17, 244, 311
PkrI GCNGC 1 cut(s) 400
Psp6I CCWGG 1 cut(s) 239
PspGI CCWGG 1 cut(s) 239
SaqAI TTAA 2 cut(s) 234, 440
SatI GCNGC 1 cut(s) 399
ScrFI CCNGG 1 cut(s) 241
SduI GDGCHC 1 cut(s) 26
SmlI CTYRAG 2 cut(s) 233, 439
SmoI CTYRAG 2 cut(s) 233, 439
Sse9I AATT 1 cut(s) 222
SspMI CTAG 2 cut(s) 266, 407
StyD4I CCNGG 1 cut(s) 239
TaaI ACNGT 1 cut(s) 423
TaqI TCGA 1 cut(s) 318
TasI AATT 1 cut(s) 222
TfiI GAWTC 3 cut(s) 17, 244, 311
Tru1I TTAA 2 cut(s) 234, 440
Tru9I TTAA 2 cut(s) 234, 440
TscAI CASTG 1 cut(s) 340
TseI GCWGC 1 cut(s) 398
TspDTI ATGAA 2 cut(s) 39, 206
TspRI CASTG 1 cut(s) 340
Vha464I CTTAAG 2 cut(s) 233, 439
XagI CCTNNNNNAGG 1 cut(s) 71
XcmI CCANNNNNNNNNTGG 1 cut(s) 346
XmiI GTMKAC 1 cut(s) 182
XspI CTAG 2 cut(s) 266, 407
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.