Rmu_sc0005439.1_g000014

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0005439.1
OG0000538
Physical Location & Seq
Forward (+)
48262 .. 51410
3149 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0005439.1_g000014.1.cds

Sequence Viewer

Length: 795 bp
atggttgcctcggatgagaaagttgccaacttcaagaccatgaccaacaagttggaagcacaattaaaaaggttagatgcttgtttagccacggaagagagcaacagggcaaagattgttgaggctatcgattccatcgagacacaagtcaccaccgggagagatggattagtctccgacttggcgcaagtatcttcgatggagggagcgacccaagcaactaaccagtatgtagctcaaaagcagtcgaatttggatgacctaaagattagttttcagagcaactccaacaacttctctataatttttgatacaacttcattgaagctagagaaacttgatgctatgatggttgattttgctgatctcatctcaaagccatttcctggcttcaataataatccagtggatgccaagccatttgttggccaggatgagtatgcattggccaaggaaggacttcggaaaatctttgatctgcccaggatgactagaaatgagttgaaggtggcctcagacctatcagcttcaattactcggaagaagtttgtgcttcagcaagattattccaagtacaccgaggcgaagaaagaaattcttgcctcagaggagaaaattgccaaccttaaggctactctagcaacagaacagagcaagaaggcaaagtttgatgaagtttttgattcgattgagactcgagtaacctctaccaaagatggattggtctcgaacttagaacaagtgtctggcatggagggaacagtccaagctgctaaccagttagtatctccgtga
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

264

Amino Acids

29.13

Weight (kDa)

5.03

Isoelectric Point (pI)

31.81

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)
AccB7I CCANNNNNTGG 2 cut(s) 386, 425
AcoI YGGCCR 2 cut(s) 427, 447
AcsI RAATTY 2 cut(s) 250, 594
AcuI CTGAAG 1 cut(s) 539
AfaI GTAC 1 cut(s) 575
AfiI CCNNNNNNNGG 2 cut(s) 386, 425
AflII CTTAAG 1 cut(s) 626
AgsI TTSAA 5 cut(s) 34, 325, 394, 505, 531
AjnI CCWGG 3 cut(s) 385, 429, 482
AluBI AGCT 4 cut(s) 236, 328, 527, 770
AluI AGCT 4 cut(s) 236, 328, 527, 770
Alw26I GTCTC 4 cut(s) 134, 178, 686, 730
Ama87I CYCGRG 1 cut(s) 696
AoxI GGCC 3 cut(s) 427, 447, 510
ApeKI GCWGC 1 cut(s) 770
ApoI RAATTY 2 cut(s) 250, 594
Asp700I GAANNNNTTC 1 cut(s) 459
AspLEI GCGC 1 cut(s) 187
AsuC2I CCSGG 1 cut(s) 157
AsuHPI GGTGA 1 cut(s) 142
AvaI CYCGRG 1 cut(s) 696
BalI TGGCCA 2 cut(s) 429, 449
BbvI GCAGC 1 cut(s) 757
BccI CCATC 5 cut(s) 143, 158, 193, 343, 710
BciT130I CCWGG 3 cut(s) 387, 431, 484
BcnI CCSGG 1 cut(s) 157
BcoDI GTCTC 4 cut(s) 134, 178, 686, 730
BfaI CTAG 3 cut(s) 329, 492, 638
BfrI CTTAAG 1 cut(s) 626
BisI GCNGC 1 cut(s) 771
BlsI GCNGC 1 cut(s) 772
Bme1390I CCNGG 4 cut(s) 157, 387, 431, 484
BmeT110I CYCGRG 1 cut(s) 696
BmrFI CCNGG 4 cut(s) 157, 387, 431, 484
BmsI GCATC 3 cut(s) 67, 331, 400
BoxI GACNNNNGTC 1 cut(s) 146
BpuMI CCSGG 1 cut(s) 157
Bsa29I ATCGAT 1 cut(s) 129
BsaI GGTCTC 1 cut(s) 730
BsaJI CCNNGG 5 cut(s) 9, 90, 450, 482, 579
Bsc4I CCNNNNNNNGG 2 cut(s) 386, 425
Bse1I ACTGG 3 cut(s) 226, 404, 778
BseBI CCWGG 3 cut(s) 387, 431, 484
BseCI ATCGAT 1 cut(s) 129
BseDI CCNNGG 5 cut(s) 9, 90, 450, 482, 579
BseGI GGATG 5 cut(s) 19, 262, 415, 439, 492
BseLI CCNNNNNNNGG 2 cut(s) 386, 425
BseMII CTCAG 2 cut(s) 528, 618
BseNI ACTGG 3 cut(s) 226, 404, 778
BseRI GAGGAG 1 cut(s) 623
BseXI GCAGC 1 cut(s) 757
BshFI GGCC 3 cut(s) 429, 449, 512
BshVI ATCGAT 1 cut(s) 129
BsiHKCI CYCGRG 1 cut(s) 696
BsiSI CCGG 1 cut(s) 156
BslI CCNNNNNNNGG 2 cut(s) 386, 425
BsmAI GTCTC 4 cut(s) 134, 178, 686, 730
BsnI GGCC 3 cut(s) 429, 449, 512
Bso31I GGTCTC 1 cut(s) 730
BsoBI CYCGRG 1 cut(s) 696
Bsp143I GATC 2 cut(s) 364, 475
BspANI GGCC 3 cut(s) 429, 449, 512
BspCNI CTCAG 2 cut(s) 527, 617
BspDI ATCGAT 1 cut(s) 129
BspTI CTTAAG 1 cut(s) 626
BspTNI GGTCTC 1 cut(s) 730
BsrI ACTGG 3 cut(s) 226, 404, 778
BssECI CCNNGG 5 cut(s) 9, 90, 450, 482, 579
BssMI GATC 2 cut(s) 364, 475
BssT1I CCWWGG 1 cut(s) 450
Bst2UI CCWGG 3 cut(s) 387, 431, 484
Bst4CI ACNGT 1 cut(s) 763
Bst6I CTCTTC 1 cut(s) 90
BstAFI CTTAAG 1 cut(s) 626
BstDEI CTNAG 3 cut(s) 514, 604, 733
BstDSI CCRYGG 1 cut(s) 90
BstF5I GGATG 5 cut(s) 19, 262, 415, 439, 492
BstHHI GCGC 1 cut(s) 187
BstKTI GATC 2 cut(s) 367, 478
BstMAI GTCTC 4 cut(s) 134, 178, 686, 730
BstMBI GATC 2 cut(s) 364, 475
BstMWI GCNNNNNNNGC 3 cut(s) 86, 215, 638
BstNI CCWGG 3 cut(s) 387, 431, 484
BstPAI GACNNNNGTC 1 cut(s) 146
BstSCI CCNGG 4 cut(s) 155, 385, 429, 482
BstV1I GCAGC 1 cut(s) 757
BstXI CCANNNNNNTGG 1 cut(s) 52
Bsu15I ATCGAT 1 cut(s) 129
BsuRI GGCC 3 cut(s) 429, 449, 512
BsuTUI ATCGAT 1 cut(s) 129
BtgI CCRYGG 1 cut(s) 90
BtsCI GGATG 5 cut(s) 19, 262, 415, 439, 492
BtsIMutI CAGTG 1 cut(s) 411
CfoI GCGC 1 cut(s) 187
ClaI ATCGAT 1 cut(s) 129
Csp6I GTAC 1 cut(s) 574
CviAII CATG 2 cut(s) 40, 751
CviQI GTAC 1 cut(s) 574
DdeI CTNAG 3 cut(s) 514, 604, 733
DpnI GATC 2 cut(s) 366, 477
DpnII GATC 2 cut(s) 364, 475
EaeI YGGCCR 2 cut(s) 427, 447
Eam1104I CTCTTC 1 cut(s) 90
EarI CTCTTC 1 cut(s) 90
Eco130I CCWWGG 1 cut(s) 450
Eco31I GGTCTC 1 cut(s) 730
Eco57I CTGAAG 1 cut(s) 539
Eco88I CYCGRG 1 cut(s) 696
EcoRII CCWGG 3 cut(s) 385, 429, 482
EcoT14I CCWWGG 1 cut(s) 450
EcoT22I ATGCAT 1 cut(s) 445
ErhI CCWWGG 1 cut(s) 450
FaeI CATG 2 cut(s) 43, 754
FaiI YATR 6 cut(s) 41, 231, 302, 347, 441, 752
FalI AAGNNNNNCTT 2 cut(s) 582, 614
FatI CATG 2 cut(s) 39, 750
Fnu4HI GCNGC 1 cut(s) 771
FokI GGATG 5 cut(s) 26, 269, 422, 446, 499
Fsp4HI GCNGC 1 cut(s) 771
FspBI CTAG 3 cut(s) 329, 492, 638
GlaI GCGC 1 cut(s) 186
GluI GCNGC 1 cut(s) 771
HaeIII GGCC 3 cut(s) 429, 449, 512
HapII CCGG 1 cut(s) 156
HhaI GCGC 1 cut(s) 187
Hin1II CATG 2 cut(s) 43, 754
Hin6I GCGC 1 cut(s) 185
HinP1I GCGC 1 cut(s) 185
HinfI GANTC 3 cut(s) 131, 683, 694
HpaII CCGG 1 cut(s) 156
HphI GGTGA 1 cut(s) 142
Hpy166II GTNNAC 1 cut(s) 576
Hpy188I TCNGA 7 cut(s) 13, 178, 279, 465, 517, 540, 607
Hpy188III TCNNGA 3 cut(s) 34, 139, 727
Hpy8I GTNNAC 1 cut(s) 576
HpyAV CCTTC 3 cut(s) 449, 499, 652
HpyCH4III ACNGT 1 cut(s) 763
HpyCH4V TGCA 1 cut(s) 443
HpyF10VI GCNNNNNNNGC 3 cut(s) 86, 215, 638
HpyF3I CTNAG 3 cut(s) 514, 604, 733
Hsp92II CATG 2 cut(s) 43, 754
HspAI GCGC 1 cut(s) 185
Kzo9I GATC 2 cut(s) 364, 475
LmnI GCTCC 1 cut(s) 206
Lsp1109I GCAGC 1 cut(s) 757
LweI GCATC 3 cut(s) 67, 331, 400
MaeI CTAG 3 cut(s) 329, 492, 638
MaeIII GTNAC 2 cut(s) 148, 700
MalI GATC 2 cut(s) 366, 477
MboI GATC 2 cut(s) 364, 475
MboII GAAGA 4 cut(s) 107, 186, 553, 598
MlsI TGGCCA 2 cut(s) 429, 449
MluCI AATT 6 cut(s) 62, 250, 303, 531, 594, 615
MluNI TGGCCA 2 cut(s) 429, 449
MlyI GAGTC 1 cut(s) 688
MmeI TCCRAC 3 cut(s) 33, 201, 312
MnlI CCTC 9 cut(s) 19, 115, 196, 523, 574, 601, 613, 715, 748
Mox20I TGGCCA 2 cut(s) 429, 449
Mph1103I ATGCAT 1 cut(s) 445
MroXI GAANNNNTTC 1 cut(s) 459
MscI TGGCCA 2 cut(s) 429, 449
MseI TTAA 2 cut(s) 65, 627
Msp20I TGGCCA 2 cut(s) 429, 449
MspCI CTTAAG 1 cut(s) 626
MspI CCGG 1 cut(s) 156
MspR9I CCNGG 4 cut(s) 157, 387, 431, 484
MvaI CCWGG 3 cut(s) 387, 431, 484
MwoI GCNNNNNNNGC 3 cut(s) 86, 215, 638
NciI CCSGG 1 cut(s) 157
NdeII GATC 2 cut(s) 364, 475
NlaIII CATG 2 cut(s) 43, 754
NmuCI GTSAC 1 cut(s) 148
NsiI ATGCAT 1 cut(s) 445
PaeR7I CTCGAG 1 cut(s) 696
PcsI WCGNNNNNNNCGW 1 cut(s) 135
PdmI GAANNNNTTC 1 cut(s) 459
PfeI GAWTC 2 cut(s) 131, 683
PflMI CCANNNNNTGG 2 cut(s) 386, 425
PkrI GCNGC 1 cut(s) 772
PleI GAGTC 1 cut(s) 688
PpsI GAGTC 1 cut(s) 688
PshAI GACNNNNGTC 1 cut(s) 146
Psp6I CCWGG 3 cut(s) 385, 429, 482
PspGI CCWGG 3 cut(s) 385, 429, 482
PspXI VCTCGAGB 1 cut(s) 696
RsaI GTAC 1 cut(s) 575
RsaNI GTAC 1 cut(s) 574
SaqAI TTAA 2 cut(s) 65, 627
SatI GCNGC 1 cut(s) 771
Sau3AI GATC 2 cut(s) 364, 475
SchI GAGTC 1 cut(s) 688
ScrFI CCNGG 4 cut(s) 157, 387, 431, 484
SfaNI GCATC 3 cut(s) 67, 331, 400
Sfr274I CTCGAG 1 cut(s) 696
SlaI CTCGAG 1 cut(s) 696
SmlI CTYRAG 2 cut(s) 626, 696
SmoI CTYRAG 2 cut(s) 626, 696
Sse9I AATT 6 cut(s) 62, 250, 303, 531, 594, 615
SspMI CTAG 3 cut(s) 329, 492, 638
StyD4I CCNGG 4 cut(s) 155, 385, 429, 482
StyI CCWWGG 1 cut(s) 450
TaaI ACNGT 1 cut(s) 763
TaqI TCGA 7 cut(s) 129, 138, 197, 248, 686, 697, 728
TasI AATT 6 cut(s) 62, 250, 303, 531, 594, 615
TatI WGTACW 1 cut(s) 573
TfiI GAWTC 2 cut(s) 131, 683
Tru1I TTAA 2 cut(s) 65, 627
Tru9I TTAA 2 cut(s) 65, 627
TscAI CASTG 1 cut(s) 411
TseFI GTSAC 1 cut(s) 148
TseI GCWGC 1 cut(s) 770
Tsp45I GTSAC 1 cut(s) 148
TspDTI ATGAA 2 cut(s) 309, 687
TspGWI ACGGA 2 cut(s) 107, 780
TspRI CASTG 1 cut(s) 411
Van91I CCANNNNNTGG 2 cut(s) 386, 425
Vha464I CTTAAG 1 cut(s) 626
XapI RAATTY 2 cut(s) 250, 594
XcmI CCANNNNNNNNNTGG 1 cut(s) 718
XhoI CTCGAG 1 cut(s) 696
XmnI GAANNNNTTC 1 cut(s) 459
XspI CTAG 3 cut(s) 329, 492, 638
Zsp2I ATGCAT 1 cut(s) 445
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.