Rmu_sc0002560.1_g000013

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002560.1
OG0000538
Physical Location & Seq
Reverse (-)
58369 .. 59028
660 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002560.1_g000013.1.cds

Sequence Viewer

Length: 660 bp
atgatggttgatgtttctaatctcatttctgaacgatttcctagctttgattttcatcaaccagaggctaagtcatctgttggccaggacgagtatgcattggccaaggaaggactccagaagatctttgatcaggggttagaagctttagctgatgaccaagtgcaaaaagagtttctcacttatacagccatgcttttatcagttgattcgtgctcattgcagttgaaggctaacctttcatcattcacagaaaacctcccagaggaaacctccacttttgttcaagctaaaaaaaagttgaaggtggtttctgacctatcagcttcagttacccacaagaagtttatgctccggcaacagagttccaagtatactgagacgaagaaaaaaagtattgcctcagaggagaaaattaccaaccttaaggcctggattcaaaagttggaagcttctctagccacagaaaagagaaacaaggcaaagattgatgaggttttggattccatcgagacacaagtaatcactgccagagatggattggtctcagacttggcacaagtgtctgccatggagggaacaacccaagctgctaacctagtagctcaacaacagtcagcgtggaatagcttaaggactacttttaccaagtttgcatga
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

219

Amino Acids

24.38

Weight (kDa)

5.83

Isoelectric Point (pI)

41.51

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) 374
AcoI YGGCCR 2 cut(s) 82, 102
AcuI CTGAAG 1 cut(s) 312
AfiI CCNNNNNNNGG 1 cut(s) 265
AflII CTTAAG 2 cut(s) 425, 631
AgsI TTSAA 4 cut(s) 229, 287, 304, 440
AjnI CCWGG 2 cut(s) 84, 431
AluBI AGCT 9 cut(s) 45, 146, 152, 290, 326, 452, 590, 605, 630
AluI AGCT 9 cut(s) 45, 146, 152, 290, 326, 452, 590, 605, 630
Alw21I GWGCWC 1 cut(s) 218
Alw26I GTCTC 3 cut(s) 374, 506, 550
AoxI GGCC 3 cut(s) 82, 102, 429
ApeKI GCWGC 1 cut(s) 590
Asp700I GAANNNNTTC 1 cut(s) 36
BalI TGGCCA 2 cut(s) 84, 104
Bbv12I GWGCWC 1 cut(s) 218
BbvI GCAGC 1 cut(s) 577
BccI CCATC 2 cut(s) 515, 530
BciT130I CCWGG 2 cut(s) 86, 433
BclI TGATCA 1 cut(s) 130
BcoDI GTCTC 3 cut(s) 374, 506, 550
BfaI CTAG 3 cut(s) 42, 458, 599
BfrI CTTAAG 2 cut(s) 425, 631
BglII AGATCT 1 cut(s) 123
BisI GCNGC 1 cut(s) 591
BlsI GCNGC 1 cut(s) 592
Bme1390I CCNGG 2 cut(s) 86, 433
BmrFI CCNGG 2 cut(s) 86, 433
BplI GAGNNNNNCTC 2 cut(s) 257, 289
BpmI CTGGAG 1 cut(s) 101
BsaBI GATNNNNATC 1 cut(s) 54
BsaI GGTCTC 1 cut(s) 550
BsaJI CCNNGG 2 cut(s) 105, 570
Bsc4I CCNNNNNNNGG 1 cut(s) 265
Bse3DI GCAATG 1 cut(s) 218
Bse8I GATNNNNATC 1 cut(s) 54
BseBI CCWGG 2 cut(s) 86, 433
BseDI CCNNGG 2 cut(s) 105, 570
BseJI GATNNNNATC 1 cut(s) 54
BseLI CCNNNNNNNGG 1 cut(s) 265
BseMI GCAATG 1 cut(s) 218
BseMII CTCAG 3 cut(s) 369, 417, 561
BseRI GAGGAG 1 cut(s) 422
BseXI GCAGC 1 cut(s) 577
BshFI GGCC 3 cut(s) 84, 104, 431
BsiHKAI GWGCWC 1 cut(s) 218
BsiSI CCGG 1 cut(s) 355
BslI CCNNNNNNNGG 1 cut(s) 265
BsmAI GTCTC 3 cut(s) 374, 506, 550
BsmBI CGTCTC 1 cut(s) 374
BsnI GGCC 3 cut(s) 84, 104, 431
Bso31I GGTCTC 1 cut(s) 550
Bsp1286I GDGCHC 1 cut(s) 218
Bsp143I GATC 2 cut(s) 123, 130
Bsp19I CCATGG 1 cut(s) 570
BspANI GGCC 3 cut(s) 84, 104, 431
BspCNI CTCAG 3 cut(s) 370, 416, 560
BspTI CTTAAG 2 cut(s) 425, 631
BspTNI GGTCTC 1 cut(s) 550
BsrDI GCAATG 1 cut(s) 218
BssECI CCNNGG 2 cut(s) 105, 570
BssMI GATC 2 cut(s) 123, 130
BssNAI GTATAC 1 cut(s) 375
BssT1I CCWWGG 2 cut(s) 105, 570
Bst1107I GTATAC 1 cut(s) 375
Bst2UI CCWGG 2 cut(s) 86, 433
Bst4CI ACNGT 1 cut(s) 615
BstAFI CTTAAG 2 cut(s) 425, 631
BstDEI CTNAG 4 cut(s) 69, 378, 403, 547
BstDSI CCRYGG 1 cut(s) 570
BstENI CCTNNNNNAGG 1 cut(s) 263
BstKTI GATC 2 cut(s) 126, 133
BstMAI GTCTC 3 cut(s) 374, 506, 550
BstMBI GATC 2 cut(s) 123, 130
BstMWI GCNNNNNNNGC 1 cut(s) 458
BstNI CCWGG 2 cut(s) 86, 433
BstSCI CCNGG 2 cut(s) 84, 431
BstV1I GCAGC 1 cut(s) 577
BstX2I RGATCY 1 cut(s) 123
BstYI RGATCY 1 cut(s) 123
BstZ17I GTATAC 1 cut(s) 375
BsuRI GGCC 3 cut(s) 84, 104, 431
BtgI CCRYGG 1 cut(s) 570
BtsI GCAGTG 1 cut(s) 525
BtsIMutI CAGTG 1 cut(s) 525
CviAII CATG 3 cut(s) 193, 571, 657
DdeI CTNAG 4 cut(s) 69, 378, 403, 547
DpnI GATC 2 cut(s) 125, 132
DpnII GATC 2 cut(s) 123, 130
EaeI YGGCCR 2 cut(s) 82, 102
Eco130I CCWWGG 2 cut(s) 105, 570
Eco147I AGGCCT 1 cut(s) 431
Eco31I GGTCTC 1 cut(s) 550
Eco57I CTGAAG 1 cut(s) 312
EcoNI CCTNNNNNAGG 1 cut(s) 263
EcoRII CCWGG 2 cut(s) 84, 431
EcoT14I CCWWGG 2 cut(s) 105, 570
EcoT22I ATGCAT 1 cut(s) 100
ErhI CCWWGG 2 cut(s) 105, 570
Esp3I CGTCTC 1 cut(s) 374
FaeI CATG 3 cut(s) 196, 574, 660
FaiI YATR 7 cut(s) 96, 186, 194, 350, 375, 572, 658
FalI AAGNNNNNCTT 2 cut(s) 625, 657
FatI CATG 3 cut(s) 192, 570, 656
FbaI TGATCA 1 cut(s) 130
FblI GTMKAC 1 cut(s) 374
Fnu4HI GCNGC 1 cut(s) 591
Fsp4HI GCNGC 1 cut(s) 591
FspBI CTAG 3 cut(s) 42, 458, 599
GluI GCNGC 1 cut(s) 591
GsuI CTGGAG 1 cut(s) 101
HaeIII GGCC 3 cut(s) 84, 104, 431
HapII CCGG 1 cut(s) 355
Hin1II CATG 3 cut(s) 196, 574, 660
HindIII AAGCTT 2 cut(s) 144, 450
HinfI GANTC 4 cut(s) 114, 209, 436, 503
HpaII CCGG 1 cut(s) 355
Hpy166II GTNNAC 1 cut(s) 375
Hpy188I TCNGA 4 cut(s) 31, 316, 406, 550
Hpy188III TCNNGA 2 cut(s) 118, 511
Hpy8I GTNNAC 1 cut(s) 375
HpyAV CCTTC 3 cut(s) 104, 223, 298
HpyCH4III ACNGT 1 cut(s) 615
HpyCH4V TGCA 4 cut(s) 98, 166, 223, 656
HpyF10VI GCNNNNNNNGC 1 cut(s) 458
HpyF3I CTNAG 4 cut(s) 69, 378, 403, 547
Hsp92II CATG 3 cut(s) 196, 574, 660
Ksp22I TGATCA 1 cut(s) 130
Kzo9I GATC 2 cut(s) 123, 130
LmnI GCTCC 1 cut(s) 357
Lsp1109I GCAGC 1 cut(s) 577
MaeI CTAG 3 cut(s) 42, 458, 599
MaeIII GTNAC 1 cut(s) 331
MalI GATC 2 cut(s) 125, 132
MboI GATC 2 cut(s) 123, 130
MboII GAAGA 2 cut(s) 133, 397
MflI RGATCY 1 cut(s) 123
MhlI GDGCHC 1 cut(s) 218
MlsI TGGCCA 2 cut(s) 84, 104
MluCI AATT 1 cut(s) 414
MluNI TGGCCA 2 cut(s) 84, 104
MlyI GAGTC 1 cut(s) 108
MmeI TCCRAC 1 cut(s) 426
MnlI CCTC 8 cut(s) 58, 259, 269, 283, 400, 412, 487, 568
Mox20I TGGCCA 2 cut(s) 84, 104
Mph1103I ATGCAT 1 cut(s) 100
MroXI GAANNNNTTC 1 cut(s) 36
MscI TGGCCA 2 cut(s) 84, 104
MseI TTAA 2 cut(s) 426, 632
Msp20I TGGCCA 2 cut(s) 84, 104
MspCI CTTAAG 2 cut(s) 425, 631
MspI CCGG 1 cut(s) 355
MspR9I CCNGG 2 cut(s) 86, 433
MvaI CCWGG 2 cut(s) 86, 433
MwoI GCNNNNNNNGC 1 cut(s) 458
NcoI CCATGG 1 cut(s) 570
NdeII GATC 2 cut(s) 123, 130
NlaIII CATG 3 cut(s) 196, 574, 660
NsiI ATGCAT 1 cut(s) 100
PceI AGGCCT 1 cut(s) 431
PdmI GAANNNNTTC 1 cut(s) 36
PfeI GAWTC 3 cut(s) 209, 436, 503
PkrI GCNGC 1 cut(s) 592
PleI GAGTC 1 cut(s) 108
PpsI GAGTC 1 cut(s) 108
Psp6I CCWGG 2 cut(s) 84, 431
PspGI CCWGG 2 cut(s) 84, 431
PsuI RGATCY 1 cut(s) 123
SaqAI TTAA 2 cut(s) 426, 632
SatI GCNGC 1 cut(s) 591
Sau3AI GATC 2 cut(s) 123, 130
SchI GAGTC 1 cut(s) 108
ScrFI CCNGG 2 cut(s) 86, 433
SduI GDGCHC 1 cut(s) 218
SmlI CTYRAG 2 cut(s) 425, 631
SmoI CTYRAG 2 cut(s) 425, 631
Sse9I AATT 1 cut(s) 414
SseBI AGGCCT 1 cut(s) 431
SspMI CTAG 3 cut(s) 42, 458, 599
StuI AGGCCT 1 cut(s) 431
StyD4I CCNGG 2 cut(s) 84, 431
StyI CCWWGG 2 cut(s) 105, 570
TaaI ACNGT 1 cut(s) 615
TaqI TCGA 1 cut(s) 510
TasI AATT 1 cut(s) 414
TfiI GAWTC 3 cut(s) 209, 436, 503
Tru1I TTAA 2 cut(s) 426, 632
Tru9I TTAA 2 cut(s) 426, 632
TscAI CASTG 1 cut(s) 532
TseI GCWGC 1 cut(s) 590
TspDTI ATGAA 2 cut(s) 44, 231
TspRI CASTG 1 cut(s) 532
Vha464I CTTAAG 2 cut(s) 425, 631
XagI CCTNNNNNAGG 1 cut(s) 263
XcmI CCANNNNNNNNNTGG 1 cut(s) 538
XmiI GTMKAC 1 cut(s) 374
XmnI GAANNNNTTC 1 cut(s) 36
XspI CTAG 3 cut(s) 42, 458, 599
Zsp2I ATGCAT 1 cut(s) 100
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.