Rmu_sc0003855.1_g000005

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003855.1
OG0000538
Physical Location & Seq
Reverse (-)
25712 .. 26185
474 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003855.1_g000005.1.cds

Sequence Viewer

Length: 474 bp
atggccaaggagggactcccaaagatatttgactgtgacttggaagctttagctgatcccaaagtccaagaggagttccttactcattcagccacacttatttctgatgattcttgcccaatagacttgaaggttaaacttttatctttccaatctaatctgtcagaggaaatgtctgctttcgtggaagctcaacgtgagttgaataaagtgtcagacctatcagcttcacttgctgggcaaaagtttgtgcttgaatcgaccacttcaaagtatgccgaagtgaaagcactgtttcttgcagcagacaagaaacatccaaacttactgccaagatcaatgctgcgtcgaaggctggaagtgaattgtttgaagatttggaaaattctagtatacgttgataagagaattattgggtacctttggagtttgtcataccctcattttgttaaatattttagaccattggattag
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

157

Amino Acids

17.97

Weight (kDa)

7.69

Isoelectric Point (pI)

44.47

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)
Acc65I GGTACC 1 cut(s) 417
AccB1I GGYRCC 1 cut(s) 417
AccI GTMKAC 1 cut(s) 393
AclWI GGATC 1 cut(s) 50
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 1 cut(s) 384
AfaI GTAC 1 cut(s) 419
AgsI TTSAA 5 cut(s) 130, 205, 257, 270, 373
AluBI AGCT 4 cut(s) 47, 53, 191, 227
AluI AGCT 4 cut(s) 47, 53, 191, 227
AlwI GGATC 1 cut(s) 50
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 2 cut(s) 302, 343
ApoI RAATTY 1 cut(s) 384
Asp718I GGTACC 1 cut(s) 417
BalI TGGCCA 1 cut(s) 5
BanI GGYRCC 1 cut(s) 417
BbvI GCAGC 2 cut(s) 314, 330
BfaI CTAG 1 cut(s) 389
BisI GCNGC 2 cut(s) 303, 344
BlsI GCNGC 2 cut(s) 304, 345
BmiI GGNNCC 1 cut(s) 419
BsaJI CCNNGG 1 cut(s) 6
BseDI CCNNGG 1 cut(s) 6
BseGI GGATG 1 cut(s) 316
BseRI GAGGAG 1 cut(s) 86
BseXI GCAGC 2 cut(s) 314, 330
BseYI CCCAGC 1 cut(s) 236
BshFI GGCC 1 cut(s) 5
BshNI GGYRCC 1 cut(s) 417
BslFI GGGAC 1 cut(s) 27
BsmFI GGGAC 1 cut(s) 27
BsnI GGCC 1 cut(s) 5
Bsp143I GATC 2 cut(s) 55, 335
BspANI GGCC 1 cut(s) 5
BspLI GGNNCC 1 cut(s) 419
BspPI GGATC 1 cut(s) 50
BspT107I GGYRCC 1 cut(s) 417
BssECI CCNNGG 1 cut(s) 6
BssMI GATC 2 cut(s) 55, 335
BssNAI GTATAC 1 cut(s) 394
BssT1I CCWWGG 1 cut(s) 6
Bst1107I GTATAC 1 cut(s) 394
Bst4CI ACNGT 2 cut(s) 35, 294
BstF5I GGATG 1 cut(s) 316
BstKTI GATC 2 cut(s) 58, 338
BstMBI GATC 2 cut(s) 55, 335
BstMWI GCNNNNNNNGC 2 cut(s) 233, 352
BstV1I GCAGC 2 cut(s) 314, 330
BstZ17I GTATAC 1 cut(s) 394
BsuRI GGCC 1 cut(s) 5
BtsCI GGATG 1 cut(s) 316
BtsIMutI CAGTG 1 cut(s) 290
CseI GACGC 1 cut(s) 335
Csp6I GTAC 1 cut(s) 418
CviJI RGCY 7 cut(s) 5, 47, 53, 92, 191, 227, 355
CviKI_1 RGCY 7 cut(s) 5, 47, 53, 92, 191, 227, 355
CviQI GTAC 1 cut(s) 418
DpnI GATC 2 cut(s) 57, 337
DpnII GATC 2 cut(s) 55, 335
EaeI YGGCCR 1 cut(s) 3
Eco130I CCWWGG 1 cut(s) 6
EcoT14I CCWWGG 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 6
FaiI YATR 3 cut(s) 276, 394, 436
FaqI GGGAC 1 cut(s) 27
FblI GTMKAC 1 cut(s) 393
Fnu4HI GCNGC 2 cut(s) 303, 344
FokI GGATG 1 cut(s) 303
Fsp4HI GCNGC 2 cut(s) 303, 344
FspBI CTAG 1 cut(s) 389
GluI GCNGC 2 cut(s) 303, 344
GsaI CCCAGC 1 cut(s) 240
HaeIII GGCC 1 cut(s) 5
HgaI GACGC 1 cut(s) 335
HindIII AAGCTT 1 cut(s) 45
HinfI GANTC 3 cut(s) 15, 110, 257
Hpy166II GTNNAC 1 cut(s) 394
Hpy188I TCNGA 3 cut(s) 106, 166, 217
Hpy8I GTNNAC 1 cut(s) 394
Hpy99I CGWCG 1 cut(s) 351
HpyAV CCTTC 2 cut(s) 124, 345
HpyCH4III ACNGT 2 cut(s) 35, 294
HpyCH4IV ACGT 2 cut(s) 196, 396
HpyCH4V TGCA 1 cut(s) 302
HpyF10VI GCNNNNNNNGC 2 cut(s) 233, 352
HpySE526I ACGT 2 cut(s) 196, 396
KpnI GGTACC 1 cut(s) 421
Kzo9I GATC 2 cut(s) 55, 335
LpnPI CCDG 2 cut(s) 222, 341
Lsp1109I GCAGC 2 cut(s) 314, 330
MaeI CTAG 1 cut(s) 389
MaeII ACGT 2 cut(s) 196, 396
MaeIII GTNAC 1 cut(s) 35
MalI GATC 2 cut(s) 57, 337
MboI GATC 2 cut(s) 55, 335
MboII GAAGA 1 cut(s) 385
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 3 cut(s) 364, 384, 408
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 1 cut(s) 9
MnlI CCTC 4 cut(s) 4, 64, 160, 450
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MseI TTAA 2 cut(s) 135, 450
Msp20I TGGCCA 1 cut(s) 5
MwoI GCNNNNNNNGC 2 cut(s) 233, 352
NdeII GATC 2 cut(s) 55, 335
NlaIV GGNNCC 1 cut(s) 419
NmuCI GTSAC 1 cut(s) 35
PfeI GAWTC 2 cut(s) 110, 257
PkrI GCNGC 2 cut(s) 304, 345
PleI GAGTC 1 cut(s) 9
PpsI GAGTC 1 cut(s) 9
PspFI CCCAGC 1 cut(s) 236
PspN4I GGNNCC 1 cut(s) 419
RsaI GTAC 1 cut(s) 419
RsaNI GTAC 1 cut(s) 418
SaqAI TTAA 2 cut(s) 135, 450
SatI GCNGC 2 cut(s) 303, 344
Sau3AI GATC 2 cut(s) 55, 335
SchI GAGTC 1 cut(s) 9
SetI ASST 9 cut(s) 49, 55, 135, 193, 199, 222, 229, 399, 423
Sse9I AATT 3 cut(s) 364, 384, 408
SspI AATATT 1 cut(s) 455
SspMI CTAG 1 cut(s) 389
StyI CCWWGG 1 cut(s) 6
TaaI ACNGT 2 cut(s) 35, 294
TaiI ACGT 2 cut(s) 199, 399
TaqI TCGA 2 cut(s) 260, 349
TasI AATT 3 cut(s) 364, 384, 408
TfiI GAWTC 2 cut(s) 110, 257
Tru1I TTAA 2 cut(s) 135, 450
Tru9I TTAA 2 cut(s) 135, 450
TscAI CASTG 1 cut(s) 297
TseFI GTSAC 1 cut(s) 35
TseI GCWGC 2 cut(s) 302, 343
Tsp45I GTSAC 1 cut(s) 35
TspRI CASTG 1 cut(s) 297
XapI RAATTY 1 cut(s) 384
XmiI GTMKAC 1 cut(s) 393
XspI CTAG 1 cut(s) 389
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.