Rmu_sc0003898.1_g000005

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003898.1
OG0000538
Physical Location & Seq
Reverse (-)
21488 .. 24603
3116 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003898.1_g000005.1.cds

Sequence Viewer

Length: 1020 bp
atgttggcgacttggctgttttggcctctagatgccaaattaccagatgcactgttctcaactacctctgccctcaggggagtggagggggcgttggagcaaggatggaggagtattatggtagagacagattgtttggaagcggtacttatggtgagtggaaatgatgagtgtcttgcaactgaagacctcttagttgagaggcttagatttttattgaaatcgttggataatggaggcatgcatcatgttttgagggtggctaacagggttgctcatgtcgttgctggttttgtagcccgagaggttggagtggcactctattggcctagcagaaacctcgagaagctcgatggtatgatggtagatgttggtgatctcatatggaagccatatcctgacttcgattttcatccaccggaagccaagtcattttttggccaggacgagtttgcattggccagggaaggaatccagaagatcttatatcgtggtttagaagccttagctgatgaccaagtgcaaaaagagtttctcgcttattcagctatacttttatcagttgattcatgcccaccggagttgaaggctaacctttcatcattcagagaaaatctcccagaggaaacctccacttttgttcaagctcggaatgagttgaaggtggcctcagacctatcagcttcaattactcagaagaagtttctgctccagcaacaaacttccaggtataccgaggcgaagaaagaacttctttcctcagagaagaaaattgccgaccttaaggccacaattgaaaagttggaagcttctgtagccacagaagagaccaagaaggcgaagattgataaggttttggattccattgagacacaagtaactactgccaaagatggattggcctcggacttggcaaaagtgtataccatggagggaaagccccaagctgctaaccagttagtaggtcgacgacaatcagcatgggataggctaaggactacttttaccaagtttgcatga
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

339

Amino Acids

37.87

Weight (kDa)

5.29

Isoelectric Point (pI)

32.98

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 3 cut(s) 731, 923, 967
AciI CCGC 1 cut(s) 143
AcoI YGGCCR 2 cut(s) 439, 459
AcuI CTGAAG 1 cut(s) 204
AfaI GTAC 1 cut(s) 147
AflII CTTAAG 1 cut(s) 782
AgsI TTSAA 6 cut(s) 220, 586, 644, 661, 687, 797
AjnI CCWGG 3 cut(s) 441, 461, 725
AluBI AGCT 7 cut(s) 349, 509, 548, 647, 683, 809, 947
AluI AGCT 7 cut(s) 349, 509, 548, 647, 683, 809, 947
Alw26I GTCTC 3 cut(s) 119, 821, 863
Ama87I CYCGRG 2 cut(s) 300, 341
AoxI GGCC 7 cut(s) 23, 326, 439, 459, 666, 786, 900
ApeKI GCWGC 1 cut(s) 947
ArsI GACNNNNNNTTYG 2 cut(s) 118, 150
AsuHPI GGTGA 2 cut(s) 166, 386
AvaI CYCGRG 2 cut(s) 300, 341
AxyI CCTNAGG 1 cut(s) 74
BalI TGGCCA 2 cut(s) 441, 461
BbsI GAAGAC 1 cut(s) 192
BbvI GCAGC 1 cut(s) 934
BccI CCATC 4 cut(s) 99, 347, 355, 887
BcgI CGANNNNNNTGC 2 cut(s) 322, 356
BciT130I CCWGG 3 cut(s) 443, 463, 727
BcoDI GTCTC 3 cut(s) 119, 821, 863
BfaI CTAG 2 cut(s) 29, 330
BfmI CTRYAG 1 cut(s) 813
BfrI CTTAAG 1 cut(s) 782
BglII AGATCT 1 cut(s) 480
BisI GCNGC 1 cut(s) 948
BlsI GCNGC 1 cut(s) 949
Bme1390I CCNGG 3 cut(s) 443, 463, 727
BmeT110I CYCGRG 2 cut(s) 300, 341
BmrFI CCNGG 3 cut(s) 443, 463, 727
BmsI GCATC 3 cut(s) 22, 37, 253
BpiI GAAGAC 1 cut(s) 192
BplI GAGNNNNNCTC 6 cut(s) 303, 335, 600, 632, 614, 646
BpmI CTGGAG 1 cut(s) 695
Bpu10I CCTNAGC 2 cut(s) 505, 992
BsaBI GATNNNNATC 1 cut(s) 411
BsaI GGTCTC 1 cut(s) 821
BsaJI CCNNGG 4 cut(s) 462, 735, 903, 927
BsaWI WCCGGW 2 cut(s) 418, 577
BsaXI ACNNNNNCTCC 2 cut(s) 77, 107
Bse1I ACTGG 1 cut(s) 955
Bse21I CCTNAGG 1 cut(s) 74
Bse8I GATNNNNATC 1 cut(s) 411
BseBI CCWGG 3 cut(s) 443, 463, 727
BseDI CCNNGG 4 cut(s) 462, 735, 903, 927
BseGI GGATG 2 cut(s) 110, 412
BseJI GATNNNNATC 1 cut(s) 411
BseMII CTCAG 4 cut(s) 88, 684, 707, 774
BseNI ACTGG 1 cut(s) 955
BseRI GAGGAG 1 cut(s) 124
BseXI GCAGC 1 cut(s) 934
BshFI GGCC 7 cut(s) 25, 328, 441, 461, 668, 788, 902
BsiHKCI CYCGRG 2 cut(s) 300, 341
BsiSI CCGG 2 cut(s) 419, 578
BsmAI GTCTC 3 cut(s) 119, 821, 863
BsnI GGCC 7 cut(s) 25, 328, 441, 461, 668, 788, 902
Bso31I GGTCTC 1 cut(s) 821
BsoBI CYCGRG 2 cut(s) 300, 341
Bsp143I GATC 2 cut(s) 376, 480
Bsp19I CCATGG 1 cut(s) 927
BspACI CCGC 1 cut(s) 143
BspANI GGCC 7 cut(s) 25, 328, 441, 461, 668, 788, 902
BspCNI CTCAG 4 cut(s) 87, 683, 706, 773
BspTI CTTAAG 1 cut(s) 782
BspTNI GGTCTC 1 cut(s) 821
BsrI ACTGG 1 cut(s) 955
BssECI CCNNGG 4 cut(s) 462, 735, 903, 927
BssMI GATC 2 cut(s) 376, 480
BssNAI GTATAC 2 cut(s) 732, 924
BssT1I CCWWGG 1 cut(s) 927
Bst1107I GTATAC 2 cut(s) 732, 924
Bst2UI CCWGG 3 cut(s) 443, 463, 727
Bst4CI ACNGT 1 cut(s) 54
Bst6I CTCTTC 1 cut(s) 819
BstAFI CTTAAG 1 cut(s) 782
BstC8I GCNNGC 1 cut(s) 242
BstDEI CTNAG 8 cut(s) 74, 193, 206, 505, 670, 693, 760, 992
BstDSI CCRYGG 1 cut(s) 927
BstF5I GGATG 2 cut(s) 110, 412
BstKTI GATC 2 cut(s) 379, 483
BstMAI GTCTC 3 cut(s) 119, 821, 863
BstMBI GATC 2 cut(s) 376, 480
BstMWI GCNNNNNNNGC 3 cut(s) 22, 545, 815
BstNI CCWGG 3 cut(s) 443, 463, 727
BstNSI RCATGY 1 cut(s) 244
BstSCI CCNGG 3 cut(s) 441, 461, 725
BstSFI CTRYAG 1 cut(s) 813
BstV1I GCAGC 1 cut(s) 934
BstV2I GAAGAC 1 cut(s) 192
BstX2I RGATCY 1 cut(s) 480
BstYI RGATCY 1 cut(s) 480
BstZ17I GTATAC 2 cut(s) 732, 924
Bsu36I CCTNAGG 1 cut(s) 74
BsuRI GGCC 7 cut(s) 25, 328, 441, 461, 668, 788, 902
BtgI CCRYGG 1 cut(s) 927
BtsCI GGATG 2 cut(s) 110, 412
BtsIMutI CAGTG 1 cut(s) 50
Cac8I GCNNGC 1 cut(s) 242
Csp6I GTAC 1 cut(s) 146
CspCI CAANNNNNGTGG 2 cut(s) 564, 599
CviAII CATG 7 cut(s) 241, 248, 278, 570, 928, 981, 1017
CviQI GTAC 1 cut(s) 146
DdeI CTNAG 8 cut(s) 74, 193, 206, 505, 670, 693, 760, 992
DpnI GATC 2 cut(s) 378, 482
DpnII GATC 2 cut(s) 376, 480
EaeI YGGCCR 2 cut(s) 439, 459
Eam1104I CTCTTC 1 cut(s) 819
EarI CTCTTC 1 cut(s) 819
Eco130I CCWWGG 1 cut(s) 927
Eco31I GGTCTC 1 cut(s) 821
Eco57I CTGAAG 1 cut(s) 204
Eco81I CCTNAGG 1 cut(s) 74
Eco88I CYCGRG 2 cut(s) 300, 341
EcoRII CCWGG 3 cut(s) 441, 461, 725
EcoT14I CCWWGG 1 cut(s) 927
EcoT22I ATGCAT 1 cut(s) 246
ErhI CCWWGG 1 cut(s) 927
FaeI CATG 7 cut(s) 244, 251, 281, 573, 931, 984, 1020
FalI AAGNNNNNCTT 6 cut(s) 132, 164, 738, 770, 985, 1017
FatI CATG 7 cut(s) 240, 247, 277, 569, 927, 980, 1016
FauNDI CATATG 1 cut(s) 383
FblI GTMKAC 3 cut(s) 731, 923, 967
Fnu4HI GCNGC 1 cut(s) 948
FokI GGATG 2 cut(s) 117, 399
Fsp4HI GCNGC 1 cut(s) 948
FspBI CTAG 2 cut(s) 29, 330
GluI GCNGC 1 cut(s) 948
GsuI CTGGAG 1 cut(s) 695
HaeIII GGCC 7 cut(s) 25, 328, 441, 461, 668, 788, 902
HapII CCGG 2 cut(s) 419, 578
Hin1II CATG 7 cut(s) 244, 251, 281, 573, 931, 984, 1020
HincII GTYRAC 1 cut(s) 968
HindII GTYRAC 1 cut(s) 968
HindIII AAGCTT 1 cut(s) 807
HinfI GANTC 3 cut(s) 471, 566, 860
HpaII CCGG 2 cut(s) 419, 578
HphI GGTGA 2 cut(s) 166, 386
Hpy166II GTNNAC 3 cut(s) 732, 924, 968
Hpy188I TCNGA 6 cut(s) 608, 651, 673, 696, 763, 907
Hpy188III TCNNGA 4 cut(s) 29, 343, 398, 475
Hpy8I GTNNAC 3 cut(s) 732, 924, 968
Hpy99I CGWCG 1 cut(s) 972
HpyAV CCTTC 4 cut(s) 461, 580, 655, 829
HpyCH4III ACNGT 1 cut(s) 54
HpyCH4V TGCA 6 cut(s) 50, 179, 244, 455, 523, 1016
HpyF10VI GCNNNNNNNGC 3 cut(s) 22, 545, 815
HpyF3I CTNAG 8 cut(s) 74, 193, 206, 505, 670, 693, 760, 992
Hsp92II CATG 7 cut(s) 244, 251, 281, 573, 931, 984, 1020
Kzo9I GATC 2 cut(s) 376, 480
LmnI GCTCC 2 cut(s) 97, 714
Lsp1109I GCAGC 1 cut(s) 934
LweI GCATC 3 cut(s) 22, 37, 253
MaeI CTAG 2 cut(s) 29, 330
MaeIII GTNAC 1 cut(s) 877
MalI GATC 2 cut(s) 378, 482
MboI GATC 2 cut(s) 376, 480
MboII GAAGA 7 cut(s) 197, 490, 709, 754, 778, 836, 853
MfeI CAATTG 1 cut(s) 792
MflI RGATCY 1 cut(s) 480
MlsI TGGCCA 2 cut(s) 441, 461
MluCI AATT 4 cut(s) 38, 687, 771, 792
MluNI TGGCCA 2 cut(s) 441, 461
MmeI TCCRAC 4 cut(s) 75, 207, 289, 783
Mox20I TGGCCA 2 cut(s) 441, 461
Mph1103I ATGCAT 1 cut(s) 246
MscI TGGCCA 2 cut(s) 441, 461
MseI TTAA 1 cut(s) 783
Msp20I TGGCCA 2 cut(s) 441, 461
MspCI CTTAAG 1 cut(s) 782
MspI CCGG 2 cut(s) 419, 578
MspR9I CCNGG 3 cut(s) 443, 463, 727
MunI CAATTG 1 cut(s) 792
MvaI CCWGG 3 cut(s) 443, 463, 727
MwoI GCNNNNNNNGC 3 cut(s) 22, 545, 815
NcoI CCATGG 1 cut(s) 927
NdeI CATATG 1 cut(s) 383
NdeII GATC 2 cut(s) 376, 480
NlaIII CATG 7 cut(s) 244, 251, 281, 573, 931, 984, 1020
NsiI ATGCAT 1 cut(s) 246
NspI RCATGY 1 cut(s) 244
PaeI GCATGC 1 cut(s) 244
PaeR7I CTCGAG 1 cut(s) 341
PcsI WCGNNNNNNNCGW 1 cut(s) 348
PfeI GAWTC 3 cut(s) 471, 566, 860
PkrI GCNGC 1 cut(s) 949
Psp6I CCWGG 3 cut(s) 441, 461, 725
PspGI CCWGG 3 cut(s) 441, 461, 725
PsuI RGATCY 1 cut(s) 480
RsaI GTAC 1 cut(s) 147
RsaNI GTAC 1 cut(s) 146
SalI GTCGAC 1 cut(s) 966
SaqAI TTAA 1 cut(s) 783
SatI GCNGC 1 cut(s) 948
Sau3AI GATC 2 cut(s) 376, 480
ScrFI CCNGG 3 cut(s) 443, 463, 727
SfaNI GCATC 3 cut(s) 22, 37, 253
SfcI CTRYAG 1 cut(s) 813
Sfr274I CTCGAG 1 cut(s) 341
SlaI CTCGAG 1 cut(s) 341
SmlI CTYRAG 2 cut(s) 341, 782
SmoI CTYRAG 2 cut(s) 341, 782
SphI GCATGC 1 cut(s) 244
Sse9I AATT 4 cut(s) 38, 687, 771, 792
SsiI CCGC 1 cut(s) 143
SspMI CTAG 2 cut(s) 29, 330
StyD4I CCNGG 3 cut(s) 441, 461, 725
StyI CCWWGG 1 cut(s) 927
TaaI ACNGT 1 cut(s) 54
TaqI TCGA 4 cut(s) 342, 351, 405, 967
TasI AATT 4 cut(s) 38, 687, 771, 792
TfiI GAWTC 3 cut(s) 471, 566, 860
Tru1I TTAA 1 cut(s) 783
Tru9I TTAA 1 cut(s) 783
TscAI CASTG 1 cut(s) 57
TseI GCWGC 1 cut(s) 947
TspDTI ATGAA 3 cut(s) 401, 558, 588
TspRI CASTG 1 cut(s) 57
Vha464I CTTAAG 1 cut(s) 782
XbaI TCTAGA 1 cut(s) 28
XceI RCATGY 1 cut(s) 244
XcmI CCANNNNNNNNNTGG 1 cut(s) 895
XhoI CTCGAG 1 cut(s) 341
XmiI GTMKAC 3 cut(s) 731, 923, 967
XspI CTAG 2 cut(s) 29, 330
Zsp2I ATGCAT 1 cut(s) 246
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.