Rroxscaffold_3G00245820

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0015785
Physical Location & Seq
Forward (+)
38938895 .. 38939362
468 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00245820.1

Sequence Viewer

Length: 468 bp
ATGCAGATCTTTGTGAAAACCCTAACCGGCAAGACCATCACCCTTGAGGTGGAGAGCTCTGACACCATCGACAACGTCAAAGCCAAGATCCAGGACAAGGAGGGCATCCCCCCAGATCAACAGAGGCTCATCTTCGCCGGCAAACAACTTGAGGACGGCCGGACCCTCGCCGACTACAATATCCAGAAGGAGGCGACTCTCCATCTCGTGCTCAGGCTTCGCGGTGGCATGCAGATTTTTGTGAAGACTTTGACTGGCAAGACCATCACTCTGGAGGTGGAGAGCTCCGATACCATTGACAATGTCAAAGCTAAGATTCAGGATAAGGAGGGTATCCCACCGGATCAGCAGAGGCTGATCTTTGCCGGAAAGCAATTGGAGGATGGTCGTACATTGGCCGATTATAATATCCAGAAAGAGTCTACCCTGCACCTTGTTCTTCGTCTCCGCGGTGGTGCTGATTTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03320 map03320
Pfam Domains
Protein Families
ubiquitin

Protein Analysis

155

Amino Acids

17.35

Weight (kDa)

6.14

Isoelectric Point (pI)

26.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 1.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 4e-32 Ubiquitin family
Rad60-SLD PF11976 77 - 147 1.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 1.8e-32 Ubiquitin family
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: OG0015785)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05050 AT4G05320
fragaria_vesca FvH4_6g15632
malus_domestica MD03G1210400.v1.1
pyrus_communis pycom12g11960
rosa_chinensis RchiOBHm_Chr7g0210981 RchiOBHm_Chr7g0213511
rosa_roxburghii Rroxscaffold_3G00245820
rosa_samantha Rh7AG255300 Rh7AG275800 Rh7CG271900 Rh7CG294700
rosa_wichuraiana Rw0G023470 Rw7G021840 Rw7G023830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 405
AccI GTMKAC 1 cut(s) 422
AccII CGCG 2 cut(s) 222, 450
AciI CCGC 3 cut(s) 222, 448, 450
AclWI GGATC 2 cut(s) 82, 351
AcoI YGGCCR 2 cut(s) 157, 396
AfaI GTAC 1 cut(s) 391
AfiI CCNNNNNNNGG 3 cut(s) 49, 97, 190
AjnI CCWGG 1 cut(s) 90
AluBI AGCT 3 cut(s) 57, 285, 311
AluI AGCT 3 cut(s) 57, 285, 311
Alw21I GWGCWC 3 cut(s) 59, 213, 287
Alw26I GTCTC 1 cut(s) 449
AlwI GGATC 2 cut(s) 82, 351
AlwNI CAGNNNCTG 1 cut(s) 355
AoxI GGCC 2 cut(s) 157, 396
AspS9I GGNCC 1 cut(s) 162
AsuHPI GGTGA 1 cut(s) 31
AvaII GGWCC 1 cut(s) 162
BanII GRGCYC 2 cut(s) 59, 287
BauI CACGAG 1 cut(s) 206
BbsI GAAGAC 1 cut(s) 251
Bbv12I GWGCWC 3 cut(s) 59, 213, 287
BccI CCATC 5 cut(s) 44, 74, 210, 272, 377
BceAI ACGGC 1 cut(s) 172
BciT130I CCWGG 1 cut(s) 92
BciVI GTATCC 1 cut(s) 344
BcoDI GTCTC 1 cut(s) 449
BfuI GTATCC 1 cut(s) 344
BglII AGATCT 1 cut(s) 6
Bme1390I CCNGG 1 cut(s) 92
Bme18I GGWCC 1 cut(s) 162
BmgT120I GGNCC 1 cut(s) 162
BmiI GGNNCC 1 cut(s) 164
BmrFI CCNGG 1 cut(s) 92
BmsI GCATC 1 cut(s) 114
BpiI GAAGAC 1 cut(s) 251
BpmI CTGGAG 1 cut(s) 293
Bpu10I CCTNAGC 1 cut(s) 212
BpuEI CTTGAG 2 cut(s) 65, 170
BsaJI CCNNGG 1 cut(s) 448
BsaWI WCCGGW 1 cut(s) 340
Bsc4I CCNNNNNNNGG 3 cut(s) 49, 97, 190
Bse118I RCCGGY 2 cut(s) 26, 137
Bse1I ACTGG 1 cut(s) 259
BseBI CCWGG 1 cut(s) 92
BseDI CCNNGG 1 cut(s) 448
BseGI GGATG 2 cut(s) 105, 388
BseLI CCNNNNNNNGG 3 cut(s) 49, 97, 190
BseMII CTCAG 1 cut(s) 226
BseNI ACTGG 1 cut(s) 259
BseX3I CGGCCG 1 cut(s) 157
BsgI GTGCAG 1 cut(s) 413
Bsh1236I CGCG 2 cut(s) 222, 450
Bsh1285I CGRYCG 1 cut(s) 160
BshFI GGCC 2 cut(s) 159, 398
BsiEI CGRYCG 1 cut(s) 160
BsiHKAI GWGCWC 3 cut(s) 59, 213, 287
BsiSI CCGG 5 cut(s) 27, 138, 160, 341, 366
BslI CCNNNNNNNGG 3 cut(s) 49, 97, 190
BsmAI GTCTC 1 cut(s) 449
BsmBI CGTCTC 1 cut(s) 449
BsnI GGCC 2 cut(s) 159, 398
Bsp1286I GDGCHC 3 cut(s) 59, 213, 287
Bsp143I GATC 5 cut(s) 6, 87, 115, 343, 357
BspACI CCGC 3 cut(s) 222, 448, 450
BspANI GGCC 2 cut(s) 159, 398
BspCNI CTCAG 1 cut(s) 225
BspFNI CGCG 2 cut(s) 222, 450
BspLI GGNNCC 1 cut(s) 164
BspPI GGATC 2 cut(s) 82, 351
BsrFI RCCGGY 2 cut(s) 26, 137
BsrI ACTGG 1 cut(s) 259
BssAI RCCGGY 2 cut(s) 26, 137
BssECI CCNNGG 1 cut(s) 448
BssMI GATC 5 cut(s) 6, 87, 115, 343, 357
BssSI CACGAG 1 cut(s) 206
Bst2BI CACGAG 1 cut(s) 206
Bst2UI CCWGG 1 cut(s) 92
BstC8I GCNNGC 2 cut(s) 139, 230
BstDEI CTNAG 2 cut(s) 212, 312
BstDSI CCRYGG 1 cut(s) 448
BstF5I GGATG 2 cut(s) 105, 388
BstFNI CGCG 2 cut(s) 222, 450
BstKTI GATC 5 cut(s) 9, 90, 118, 346, 360
BstMAI GTCTC 1 cut(s) 449
BstMBI GATC 5 cut(s) 6, 87, 115, 343, 357
BstMCI CGRYCG 1 cut(s) 160
BstNI CCWGG 1 cut(s) 92
BstNSI RCATGY 1 cut(s) 232
BstSCI CCNGG 1 cut(s) 90
BstUI CGCG 2 cut(s) 222, 450
BstV2I GAAGAC 1 cut(s) 251
BstX2I RGATCY 2 cut(s) 6, 87
BstXI CCANNNNNNTGG 1 cut(s) 271
BstYI RGATCY 2 cut(s) 6, 87
BstZI CGGCCG 1 cut(s) 157
BsuI GTATCC 1 cut(s) 344
BsuRI GGCC 2 cut(s) 159, 398
BtgI CCRYGG 1 cut(s) 448
BtsCI GGATG 2 cut(s) 105, 388
Cac8I GCNNGC 2 cut(s) 139, 230
CaiI CAGNNNCTG 1 cut(s) 355
Cfr10I RCCGGY 2 cut(s) 26, 137
Cfr13I GGNCC 1 cut(s) 162
Cfr42I CCGCGG 1 cut(s) 451
Csp6I GTAC 1 cut(s) 390
CviAII CATG 1 cut(s) 229
CviJI RGCY 9 cut(s) 57, 83, 127, 159, 217, 285, 311, 355, 398
CviKI_1 RGCY 9 cut(s) 57, 83, 127, 159, 217, 285, 311, 355, 398
CviQI GTAC 1 cut(s) 390
DdeI CTNAG 2 cut(s) 212, 312
DpnI GATC 5 cut(s) 8, 89, 117, 345, 359
DpnII GATC 5 cut(s) 6, 87, 115, 343, 357
EaeI YGGCCR 2 cut(s) 157, 396
EagI CGGCCG 1 cut(s) 157
Ecl136II GAGCTC 2 cut(s) 57, 285
EclXI CGGCCG 1 cut(s) 157
Eco24I GRGCYC 2 cut(s) 59, 287
Eco47I GGWCC 1 cut(s) 162
Eco52I CGGCCG 1 cut(s) 157
Eco53kI GAGCTC 2 cut(s) 57, 285
EcoICRI GAGCTC 2 cut(s) 57, 285
EcoRII CCWGG 1 cut(s) 90
EcoT38I GRGCYC 2 cut(s) 59, 287
Esp3I CGTCTC 1 cut(s) 449
FaeI CATG 1 cut(s) 232
FaiI YATR 2 cut(s) 230, 405
FatI CATG 1 cut(s) 228
FblI GTMKAC 1 cut(s) 422
FokI GGATG 2 cut(s) 92, 395
FriOI GRGCYC 2 cut(s) 59, 287
GsuI CTGGAG 1 cut(s) 293
HaeIII GGCC 2 cut(s) 159, 398
HapII CCGG 5 cut(s) 27, 138, 160, 341, 366
Hin1II CATG 1 cut(s) 232
HinfI GANTC 3 cut(s) 196, 316, 419
HpaII CCGG 5 cut(s) 27, 138, 160, 341, 366
HphI GGTGA 1 cut(s) 31
Hpy166II GTNNAC 1 cut(s) 423
Hpy188I TCNGA 3 cut(s) 61, 289, 467
Hpy188III TCNNGA 4 cut(s) 184, 272, 320, 412
Hpy8I GTNNAC 1 cut(s) 423
HpyAV CCTTC 1 cut(s) 181
HpyCH4IV ACGT 1 cut(s) 75
HpyCH4V TGCA 3 cut(s) 4, 232, 430
HpyF3I CTNAG 2 cut(s) 212, 312
HpySE526I ACGT 1 cut(s) 75
Hsp92II CATG 1 cut(s) 232
KroI GCCGGC 1 cut(s) 137
KroNI GCCGGC 1 cut(s) 139
KspI CCGCGG 1 cut(s) 451
Kzo9I GATC 5 cut(s) 6, 87, 115, 343, 357
LmnI GCTCC 1 cut(s) 290
LweI GCATC 1 cut(s) 114
MaeII ACGT 1 cut(s) 75
MalI GATC 5 cut(s) 8, 89, 117, 345, 359
MboI GATC 5 cut(s) 6, 87, 115, 343, 357
MboII GAAGA 3 cut(s) 124, 256, 431
MfeI CAATTG 1 cut(s) 374
MflI RGATCY 2 cut(s) 6, 87
MhlI GDGCHC 3 cut(s) 59, 213, 287
MluCI AATT 1 cut(s) 374
MlyI GAGTC 2 cut(s) 190, 428
MroNI GCCGGC 1 cut(s) 137
MspA1I CMGCKG 1 cut(s) 450
MspI CCGG 5 cut(s) 27, 138, 160, 341, 366
MspR9I CCNGG 1 cut(s) 92
MunI CAATTG 1 cut(s) 374
MvaI CCWGG 1 cut(s) 92
MvnI CGCG 2 cut(s) 222, 450
NaeI GCCGGC 1 cut(s) 139
NdeII GATC 5 cut(s) 6, 87, 115, 343, 357
NgoMIV GCCGGC 1 cut(s) 137
NlaIII CATG 1 cut(s) 232
NlaIV GGNNCC 1 cut(s) 164
NspI RCATGY 1 cut(s) 232
PaeI GCATGC 1 cut(s) 232
PdiI GCCGGC 1 cut(s) 139
PfeI GAWTC 1 cut(s) 316
PflFI GACNNNGTC 2 cut(s) 74, 302
PfoI TCCNGGA 1 cut(s) 90
PleI GAGTC 2 cut(s) 190, 427
PpsI GAGTC 2 cut(s) 190, 427
PsiI TTATAA 1 cut(s) 405
Psp124BI GAGCTC 2 cut(s) 59, 287
Psp6I CCWGG 1 cut(s) 90
PspGI CCWGG 1 cut(s) 90
PspN4I GGNNCC 1 cut(s) 164
PspPI GGNCC 1 cut(s) 162
PstNI CAGNNNCTG 1 cut(s) 355
PsuI RGATCY 2 cut(s) 6, 87
PsyI GACNNNGTC 2 cut(s) 74, 302
RsaI GTAC 1 cut(s) 391
RsaNI GTAC 1 cut(s) 390
SacI GAGCTC 2 cut(s) 59, 287
SacII CCGCGG 1 cut(s) 451
Sau3AI GATC 5 cut(s) 6, 87, 115, 343, 357
Sau96I GGNCC 1 cut(s) 162
SchI GAGTC 2 cut(s) 190, 428
ScrFI CCNGG 1 cut(s) 92
SduI GDGCHC 3 cut(s) 59, 213, 287
SetI ASST 7 cut(s) 51, 59, 78, 279, 287, 313, 435
SfaNI GCATC 1 cut(s) 114
Sfr303I CCGCGG 1 cut(s) 451
SgrBI CCGCGG 1 cut(s) 451
SinI GGWCC 1 cut(s) 162
SmlI CTYRAG 2 cut(s) 44, 149
SmoI CTYRAG 2 cut(s) 44, 149
SphI GCATGC 1 cut(s) 232
Sse9I AATT 1 cut(s) 374
SsiI CCGC 3 cut(s) 222, 448, 450
SstI GAGCTC 2 cut(s) 59, 287
StyD4I CCNGG 1 cut(s) 90
TaiI ACGT 1 cut(s) 78
TaqI TCGA 1 cut(s) 69
TasI AATT 1 cut(s) 374
TfiI GAWTC 1 cut(s) 316
Tth111I GACNNNGTC 2 cut(s) 74, 302
VpaK11BI GGWCC 1 cut(s) 162
XceI RCATGY 1 cut(s) 232
XmiI GTMKAC 1 cut(s) 422
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.