Rmu_sc0003898.1_g000016

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003898.1
OG0000538
Physical Location & Seq
Reverse (-)
76131 .. 76706
576 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003898.1_g000016.1.cds

Sequence Viewer

Length: 498 bp
atgcatgttgctgatctcatatcaaagcaatttcctggcttcaatgataatccagcggatgccaagccatttgacggccatgatgcatttgcattggccaaggaacgacttcagaaaatatttgatcaggggttagaagctttagctaatgaccaactgcaaagagagtttctcacttcttcagccatacttctatcagctgagtcctgcccatcggaattgaaggatgacctttcatcagtcagaagtaatcccccagaggaaacctctgcttttattcaagctagaaatgagttgaaggtggcctcagacctagccgcttcaattactctgaagaagtatgtgctacgtacagcaagacaacaggagagaaagaaggcgaagtttgatgaggttttggattcgattgagactcaagtaacctctgccaaagatggattggtctcggacttagcacaagtgtcctgcatggagggaacagtccaagctgctaactag
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

165

Amino Acids

18.06

Weight (kDa)

4.87

Isoelectric Point (pI)

47.48

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)
AciI CCGC 2 cut(s) 56, 318
AcoI YGGCCR 2 cut(s) 76, 96
AcuI CTGAAG 3 cut(s) 95, 165, 353
AfaI GTAC 1 cut(s) 352
AfiI CCNNNNNNNGG 1 cut(s) 74
AgsI TTSAA 5 cut(s) 43, 223, 281, 298, 324
AjnI CCWGG 1 cut(s) 34
AluBI AGCT 5 cut(s) 140, 146, 200, 284, 488
AluI AGCT 5 cut(s) 140, 146, 200, 284, 488
Alw26I GTCTC 2 cut(s) 404, 448
AoxI GGCC 3 cut(s) 76, 96, 303
ApeKI GCWGC 1 cut(s) 488
Asp700I GAANNNNTTC 1 cut(s) 108
BalI TGGCCA 1 cut(s) 98
BbvI GCAGC 1 cut(s) 475
BccI CCATC 2 cut(s) 220, 428
BceAI ACGGC 1 cut(s) 91
BciT130I CCWGG 1 cut(s) 36
BclI TGATCA 1 cut(s) 124
BcoDI GTCTC 2 cut(s) 404, 448
BfaI CTAG 3 cut(s) 285, 314, 496
BisI GCNGC 2 cut(s) 318, 489
BlsI GCNGC 2 cut(s) 319, 490
Bme1390I CCNGG 1 cut(s) 36
BmrFI CCNGG 1 cut(s) 36
BmsI GCATC 2 cut(s) 49, 73
BplI GAGNNNNNCTC 4 cut(s) 156, 188, 251, 283
BpuEI CTTGAG 1 cut(s) 399
BsaAI YACGTR 1 cut(s) 350
BsaI GGTCTC 1 cut(s) 448
BsaJI CCNNGG 1 cut(s) 99
Bsc4I CCNNNNNNNGG 1 cut(s) 74
BseBI CCWGG 1 cut(s) 36
BseDI CCNNGG 1 cut(s) 99
BseGI GGATG 2 cut(s) 64, 232
BseLI CCNNNNNNNGG 1 cut(s) 74
BseMII CTCAG 2 cut(s) 192, 321
BseXI GCAGC 1 cut(s) 475
BshFI GGCC 3 cut(s) 78, 98, 305
BslI CCNNNNNNNGG 1 cut(s) 74
BsmAI GTCTC 2 cut(s) 404, 448
BsnI GGCC 3 cut(s) 78, 98, 305
Bso31I GGTCTC 1 cut(s) 448
Bsp143I GATC 2 cut(s) 13, 124
BspACI CCGC 2 cut(s) 56, 318
BspANI GGCC 3 cut(s) 78, 98, 305
BspCNI CTCAG 2 cut(s) 193, 320
BspTNI GGTCTC 1 cut(s) 448
BssECI CCNNGG 1 cut(s) 99
BssMI GATC 2 cut(s) 13, 124
BssT1I CCWWGG 1 cut(s) 99
Bst2UI CCWGG 1 cut(s) 36
Bst4CI ACNGT 1 cut(s) 481
BstBAI YACGTR 1 cut(s) 350
BstDEI CTNAG 3 cut(s) 201, 307, 451
BstF5I GGATG 2 cut(s) 64, 232
BstKTI GATC 2 cut(s) 16, 127
BstMAI GTCTC 2 cut(s) 404, 448
BstMBI GATC 2 cut(s) 13, 124
BstNI CCWGG 1 cut(s) 36
BstNSI RCATGY 1 cut(s) 8
BstSCI CCNGG 1 cut(s) 34
BstSNI TACGTA 1 cut(s) 350
BstV1I GCAGC 1 cut(s) 475
BsuRI GGCC 3 cut(s) 78, 98, 305
BtsCI GGATG 2 cut(s) 64, 232
Csp6I GTAC 1 cut(s) 351
CviAII CATG 3 cut(s) 5, 80, 469
CviQI GTAC 1 cut(s) 351
DdeI CTNAG 3 cut(s) 201, 307, 451
DpnI GATC 2 cut(s) 15, 126
DpnII GATC 2 cut(s) 13, 124
EaeI YGGCCR 2 cut(s) 76, 96
Eco105I TACGTA 1 cut(s) 350
Eco130I CCWWGG 1 cut(s) 99
Eco31I GGTCTC 1 cut(s) 448
Eco57I CTGAAG 3 cut(s) 95, 165, 353
EcoRII CCWGG 1 cut(s) 34
EcoT14I CCWWGG 1 cut(s) 99
EcoT22I ATGCAT 2 cut(s) 6, 88
ErhI CCWWGG 1 cut(s) 99
FaeI CATG 3 cut(s) 8, 83, 472
FaiI YATR 6 cut(s) 6, 20, 81, 188, 342, 470
FatI CATG 3 cut(s) 4, 79, 468
FbaI TGATCA 1 cut(s) 124
Fnu4HI GCNGC 2 cut(s) 318, 489
FokI GGATG 2 cut(s) 71, 239
Fsp4HI GCNGC 2 cut(s) 318, 489
FspBI CTAG 3 cut(s) 285, 314, 496
GluI GCNGC 2 cut(s) 318, 489
HaeIII GGCC 3 cut(s) 78, 98, 305
Hin1II CATG 3 cut(s) 8, 83, 472
HindIII AAGCTT 1 cut(s) 138
HinfI GANTC 3 cut(s) 203, 401, 412
Hpy188I TCNGA 6 cut(s) 114, 217, 245, 310, 333, 448
HpyAV CCTTC 3 cut(s) 217, 292, 370
HpyCH4III ACNGT 1 cut(s) 481
HpyCH4IV ACGT 1 cut(s) 349
HpyCH4V TGCA 5 cut(s) 4, 86, 92, 160, 468
HpyF3I CTNAG 3 cut(s) 201, 307, 451
HpySE526I ACGT 1 cut(s) 349
Hsp92II CATG 3 cut(s) 8, 83, 472
Ksp22I TGATCA 1 cut(s) 124
Kzo9I GATC 2 cut(s) 13, 124
LpnPI CCDG 8 cut(s) 21, 48, 66, 113, 220, 270, 350, 478
Lsp1109I GCAGC 1 cut(s) 475
LweI GCATC 2 cut(s) 49, 73
MaeI CTAG 3 cut(s) 285, 314, 496
MaeII ACGT 1 cut(s) 349
MaeIII GTNAC 1 cut(s) 418
MalI GATC 2 cut(s) 15, 126
MboI GATC 2 cut(s) 13, 124
MboII GAAGA 2 cut(s) 171, 346
MlsI TGGCCA 1 cut(s) 98
MluCI AATT 3 cut(s) 29, 218, 324
MluNI TGGCCA 1 cut(s) 98
MlyI GAGTC 2 cut(s) 212, 406
MnlI CCTC 6 cut(s) 253, 277, 316, 385, 433, 466
Mox20I TGGCCA 1 cut(s) 98
Mph1103I ATGCAT 2 cut(s) 6, 88
MroXI GAANNNNTTC 1 cut(s) 108
MscI TGGCCA 1 cut(s) 98
Msp20I TGGCCA 1 cut(s) 98
MspA1I CMGCKG 2 cut(s) 56, 200
MspR9I CCNGG 1 cut(s) 36
MvaI CCWGG 1 cut(s) 36
NdeII GATC 2 cut(s) 13, 124
NlaIII CATG 3 cut(s) 8, 83, 472
NsiI ATGCAT 2 cut(s) 6, 88
NspI RCATGY 1 cut(s) 8
PdmI GAANNNNTTC 1 cut(s) 108
PfeI GAWTC 1 cut(s) 401
PkrI GCNGC 2 cut(s) 319, 490
PleI GAGTC 2 cut(s) 211, 406
PpsI GAGTC 2 cut(s) 211, 406
Ppu21I YACGTR 1 cut(s) 350
Psp6I CCWGG 1 cut(s) 34
PspGI CCWGG 1 cut(s) 34
PvuII CAGCTG 1 cut(s) 200
RsaI GTAC 1 cut(s) 352
RsaNI GTAC 1 cut(s) 351
SatI GCNGC 2 cut(s) 318, 489
Sau3AI GATC 2 cut(s) 13, 124
SchI GAGTC 2 cut(s) 212, 406
ScrFI CCNGG 1 cut(s) 36
SfaNI GCATC 2 cut(s) 49, 73
SmlI CTYRAG 1 cut(s) 414
SmoI CTYRAG 1 cut(s) 414
SnaBI TACGTA 1 cut(s) 350
Sse9I AATT 3 cut(s) 29, 218, 324
SsiI CCGC 2 cut(s) 56, 318
SspI AATATT 1 cut(s) 120
SspMI CTAG 3 cut(s) 285, 314, 496
StyD4I CCNGG 1 cut(s) 34
StyI CCWWGG 1 cut(s) 99
TaaI ACNGT 1 cut(s) 481
TaiI ACGT 1 cut(s) 352
TaqI TCGA 1 cut(s) 404
TasI AATT 3 cut(s) 29, 218, 324
TauI GCSGC 1 cut(s) 320
TfiI GAWTC 1 cut(s) 401
TseI GCWGC 1 cut(s) 488
TspDTI ATGAA 1 cut(s) 225
XceI RCATGY 1 cut(s) 8
XcmI CCANNNNNNNNNTGG 1 cut(s) 436
XmnI GAANNNNTTC 1 cut(s) 108
XspI CTAG 3 cut(s) 285, 314, 496
Zsp2I ATGCAT 2 cut(s) 6, 88
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.