RchiOBHm_Chr3g0469291

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_chinensis
3
OG0019549
Physical Location & Seq
Reverse (-)
15051234 .. 15056125
4892 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1299 bp
ATGCAGATCTTCGTGAAAACCCTGACCGGCAAGACCATCACCCTCGAGGTCGAGAGCTCTGACACCATCGACAACGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCTCCGGACCAGCAGAGGCTCATCTTCGCCGGTAAGCAGCTCGAGGACGGCCGCACCCTCGCCGACTACAACATCCAGAAGGAGTCTACTCTCCATCTGGTCCTCCGTCTCAGGGGAGGCATGCAGATCTTCGTCAAAACTCTCACCGGCAAGACGATCACTCTCGAGGTTGAGAGTTCCGACACCATCGATAACGTCAAGGCTAAAATCCAGGACAAGGAAGGAATTCCCCCGGACCAGCAGAGGCTGATCTTCGCCGGAAAGCAACTCGAAGACGGCCGCACCCTCGCCGATTACAACATCCAGAAGGAATCGACTCTCCATCTGGTGCTGCGTCTCCGGGGAGGTATGCAGATCTTTGTAAAAACCCTAACCGGCAAGACAATCACTCTCGAGGTCGAGAGCTCCGATACGATTGACAACGTCAAGGCGAAAATTCAAGACAAGGAGGGGATTCCACCGGACCAGCAGAGGCTCATATTCGCTGGGAAGCAATTGGAGGATGGCCGGACTCTAGCGGATTATAATATTCAGAAGGAGAGTACTCTGCATCTTGTGCTCAGGCTTCGTGGTGGGATGCAGATCTTCGTGAAGACTCTGACGGGGAAGACGATCACGCTTGAGGTGGAGAGTTCTGATACTATTGACAATGTCAAAGCAAAGATTCAAGACAAGGAGGGAATCCCACCGGACCAGCAGAGGTTGATCTTTGCTGGAAAGCAATTGGAGGACGGTCGCACATTGGCGGATTATAACATTCAGAAGGAGTCTACACTCCACCTTGTCCTCCGCCTCCGCGGTGGGCATGCTACTAGTCCCTTTAGGTCTTCTAAATTGATTAGGAGAAGGTCTAAATGTAGTCTATATAAAGCCCTCTTCTCTTCTTCTTCATCACAAAAATTCTCAAACGCATCTCTAGTTCTCTCTTCATCTTTTCTCGATTCAATCGCAACCATGCAGATCTTTGTGAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGCTCTGACACGATCGACAACGTCAAGGCCAAGATCCAAGATAAGGAGGGAATCCCGCCAGACCAGCAGAGGCTCATCTTCGCAGGAAAGCAGCTCGAGGATGGCCGAACTTTGGCTGATTATAATATTCAGAAGGAATCCACACTCCACCTTGTCCTTCGTCTCCGCGGTGGTGATTTCTGA
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

432

Amino Acids

48.28

Weight (kDa)

9.04

Isoelectric Point (pI)

36.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 1e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 1.3e-31 Ubiquitin family
Rad60-SLD PF11976 77 - 147 1e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 1.3e-31 Ubiquitin family
Rad60-SLD PF11976 153 - 223 1e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 155 - 226 1.3e-31 Ubiquitin family
Rad60-SLD PF11976 229 - 299 1e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 231 - 302 1.3e-31 Ubiquitin family
Rad60-SLD PF11976 355 - 425 1e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 357 - 428 1.3e-31 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: OG0019549)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65350
fragaria_vesca FvH4_6g15622
prunus_persica Prupe.6G238900_v2.0.a1
pyrus_communis pycom05g31060
rosa_chinensis RchiOBHm_Chr3g0469291
rosa_samantha Rh5BG034500 Rh5CG290800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 3 cut(s) 633, 861, 1239
AbsI CCTCGAGG 2 cut(s) 44, 1106
AccI GTMKAC 2 cut(s) 194, 878
AccII CGCG 2 cut(s) 906, 1284
AccIII TCCGGA 1 cut(s) 112
AclWI GGATC 2 cut(s) 82, 1144
AcoI YGGCCR 4 cut(s) 157, 385, 613, 1219
AcsI RAATTY 3 cut(s) 333, 543, 1007
AfaI GTAC 1 cut(s) 652
AfiI CCNNNNNNNGG 5 cut(s) 97, 220, 325, 1159, 1228
AgsI TTSAA 3 cut(s) 548, 776, 1053
AhlI ACTAGT 1 cut(s) 920
AjnI CCWGG 2 cut(s) 90, 318
AluBI AGCT 5 cut(s) 57, 148, 513, 1119, 1210
AluI AGCT 5 cut(s) 57, 148, 513, 1119, 1210
Alw21I GWGCWC 4 cut(s) 59, 515, 669, 1121
Alw26I GTCTC 3 cut(s) 221, 449, 1283
AlwI GGATC 2 cut(s) 82, 1144
AlwNI CAGNNNCTG 1 cut(s) 355
Ama87I CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
Aor13HI TCCGGA 1 cut(s) 112
AoxI GGCC 6 cut(s) 81, 157, 385, 613, 1143, 1219
ApeKI GCWGC 3 cut(s) 145, 439, 1207
ApoI RAATTY 3 cut(s) 333, 543, 1007
Asp700I GAANNNNTTC 1 cut(s) 333
AspS9I GGNCC 5 cut(s) 115, 208, 343, 571, 799
AsuC2I CCSGG 2 cut(s) 341, 449
AsuHPI GGTGA 3 cut(s) 31, 244, 1093
AvaI CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
AvaII GGWCC 5 cut(s) 115, 208, 343, 571, 799
BanII GRGCYC 3 cut(s) 59, 515, 1121
BbsI GAAGAC 4 cut(s) 387, 707, 722, 927
Bbv12I GWGCWC 4 cut(s) 59, 515, 669, 1121
BbvI GCAGC 3 cut(s) 157, 426, 1219
BccI CCATC 8 cut(s) 44, 74, 210, 302, 438, 605, 1106, 1211
BceAI ACGGC 2 cut(s) 172, 400
BciT130I CCWGG 2 cut(s) 92, 320
BcnI CCSGG 2 cut(s) 341, 449
BcoDI GTCTC 3 cut(s) 221, 449, 1283
BcuI ACTAGT 1 cut(s) 920
BfaI CTAG 3 cut(s) 623, 921, 1025
BglII AGATCT 5 cut(s) 6, 234, 462, 690, 1068
BisI GCNGC 5 cut(s) 146, 160, 388, 440, 1208
BlsI GCNGC 5 cut(s) 147, 161, 389, 441, 1209
BmcAI AGTACT 1 cut(s) 652
Bme1390I CCNGG 4 cut(s) 92, 320, 341, 449
Bme18I GGWCC 5 cut(s) 115, 208, 343, 571, 799
BmeT110I CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
BmgT120I GGNCC 5 cut(s) 115, 208, 343, 571, 799
BmrFI CCNGG 4 cut(s) 92, 320, 341, 449
BmsI GCATC 4 cut(s) 114, 667, 675, 1028
BpiI GAAGAC 4 cut(s) 387, 707, 722, 927
Bpu10I CCTNAGC 1 cut(s) 668
BpuEI CTTGAG 1 cut(s) 749
BpuMI CCSGG 2 cut(s) 341, 449
Bsa29I ATCGAT 1 cut(s) 297
BsaBI GATNNNNATC 1 cut(s) 689
BsaJI CCNNGG 4 cut(s) 339, 448, 904, 1282
BsaWI WCCGGW 3 cut(s) 112, 568, 796
Bsc4I CCNNNNNNNGG 5 cut(s) 97, 220, 325, 1159, 1228
Bse118I RCCGGY 5 cut(s) 26, 137, 254, 482, 1088
Bse8I GATNNNNATC 1 cut(s) 689
BseAI TCCGGA 1 cut(s) 112
BseBI CCWGG 2 cut(s) 92, 320
BseCI ATCGAT 1 cut(s) 297
BseDI CCNNGG 4 cut(s) 339, 448, 904, 1282
BseGI GGATG 6 cut(s) 105, 180, 408, 616, 690, 1222
BseJI GATNNNNATC 1 cut(s) 689
BseLI CCNNNNNNNGG 5 cut(s) 97, 220, 325, 1159, 1228
BseMII CTCAG 2 cut(s) 232, 682
BseX3I CGGCCG 2 cut(s) 157, 385
BseXI GCAGC 3 cut(s) 157, 426, 1219
BseYI CCCAGC 1 cut(s) 593
Bsh1236I CGCG 2 cut(s) 906, 1284
Bsh1285I CGRYCG 4 cut(s) 160, 388, 844, 1131
BshFI GGCC 6 cut(s) 83, 159, 387, 615, 1145, 1221
BshVI ATCGAT 1 cut(s) 297
BsiEI CGRYCG 4 cut(s) 160, 388, 844, 1131
BsiHKAI GWGCWC 4 cut(s) 59, 515, 669, 1121
BsiHKCI CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
BslFI GGGAC 1 cut(s) 909
BslI CCNNNNNNNGG 5 cut(s) 97, 220, 325, 1159, 1228
BsmAI GTCTC 3 cut(s) 221, 449, 1283
BsmBI CGTCTC 3 cut(s) 221, 449, 1283
BsmFI GGGAC 1 cut(s) 909
BsnI GGCC 6 cut(s) 83, 159, 387, 615, 1145, 1221
BsoBI CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
Bsp1286I GDGCHC 4 cut(s) 59, 515, 669, 1121
Bsp13I TCCGGA 1 cut(s) 112
BspANI GGCC 6 cut(s) 83, 159, 387, 615, 1145, 1221
BspCNI CTCAG 2 cut(s) 231, 681
BspDI ATCGAT 1 cut(s) 297
BspEI TCCGGA 1 cut(s) 112
BspFNI CGCG 2 cut(s) 906, 1284
BspPI GGATC 2 cut(s) 82, 1144
BsrFI RCCGGY 5 cut(s) 26, 137, 254, 482, 1088
BssAI RCCGGY 5 cut(s) 26, 137, 254, 482, 1088
BssECI CCNNGG 4 cut(s) 339, 448, 904, 1282
Bst2UI CCWGG 2 cut(s) 92, 320
Bst4CI ACNGT 1 cut(s) 842
Bst6I CTCTTC 3 cut(s) 989, 994, 1039
BstAPI GCANNNNNTGC 1 cut(s) 664
BstC8I GCNNGC 2 cut(s) 230, 915
BstDEI CTNAG 2 cut(s) 218, 668
BstDSI CCRYGG 2 cut(s) 904, 1282
BstF5I GGATG 6 cut(s) 105, 180, 408, 616, 690, 1222
BstFNI CGCG 2 cut(s) 906, 1284
BstMAI GTCTC 3 cut(s) 221, 449, 1283
BstMCI CGRYCG 4 cut(s) 160, 388, 844, 1131
BstMWI GCNNNNNNNGC 2 cut(s) 664, 1180
BstNI CCWGG 2 cut(s) 92, 320
BstNSI RCATGY 2 cut(s) 232, 917
BstSCI CCNGG 4 cut(s) 90, 318, 339, 447
BstUI CGCG 2 cut(s) 906, 1284
BstV1I GCAGC 3 cut(s) 157, 426, 1219
BstV2I GAAGAC 4 cut(s) 387, 707, 722, 927
BstX2I RGATCY 7 cut(s) 6, 87, 234, 462, 690, 1068, 1149
BstYI RGATCY 7 cut(s) 6, 87, 234, 462, 690, 1068, 1149
BstZI CGGCCG 2 cut(s) 157, 385
Bsu15I ATCGAT 1 cut(s) 297
BsuRI GGCC 6 cut(s) 83, 159, 387, 615, 1145, 1221
BsuTUI ATCGAT 1 cut(s) 297
BtgI CCRYGG 2 cut(s) 904, 1282
BtsCI GGATG 6 cut(s) 105, 180, 408, 616, 690, 1222
Cac8I GCNNGC 2 cut(s) 230, 915
CaiI CAGNNNCTG 1 cut(s) 355
Cfr10I RCCGGY 5 cut(s) 26, 137, 254, 482, 1088
Cfr13I GGNCC 5 cut(s) 115, 208, 343, 571, 799
Cfr42I CCGCGG 2 cut(s) 907, 1285
ClaI ATCGAT 1 cut(s) 297
CseI GACGC 1 cut(s) 431
Csp6I GTAC 1 cut(s) 651
CviAII CATG 3 cut(s) 229, 914, 1063
CviQI GTAC 1 cut(s) 651
DdeI CTNAG 2 cut(s) 218, 668
EaeI YGGCCR 4 cut(s) 157, 385, 613, 1219
EagI CGGCCG 2 cut(s) 157, 385
Eam1104I CTCTTC 3 cut(s) 989, 994, 1039
EarI CTCTTC 3 cut(s) 989, 994, 1039
EciI GGCGGA 2 cut(s) 869, 887
Ecl136II GAGCTC 3 cut(s) 57, 513, 1119
EclXI CGGCCG 2 cut(s) 157, 385
Eco24I GRGCYC 3 cut(s) 59, 515, 1121
Eco47I GGWCC 5 cut(s) 115, 208, 343, 571, 799
Eco52I CGGCCG 2 cut(s) 157, 385
Eco53kI GAGCTC 3 cut(s) 57, 513, 1119
Eco88I CYCGRG 6 cut(s) 44, 149, 272, 500, 1106, 1211
EcoICRI GAGCTC 3 cut(s) 57, 513, 1119
EcoRI GAATTC 1 cut(s) 333
EcoRII CCWGG 2 cut(s) 90, 318
EcoT38I GRGCYC 3 cut(s) 59, 515, 1121
Esp3I CGTCTC 3 cut(s) 221, 449, 1283
FaeI CATG 3 cut(s) 232, 917, 1066
FaqI GGGAC 1 cut(s) 909
FatI CATG 3 cut(s) 228, 913, 1062
FauI CCCGC 1 cut(s) 1179
FblI GTMKAC 2 cut(s) 194, 878
Fnu4HI GCNGC 5 cut(s) 146, 160, 388, 440, 1208
FokI GGATG 6 cut(s) 92, 167, 395, 623, 697, 1229
FriOI GRGCYC 3 cut(s) 59, 515, 1121
Fsp4HI GCNGC 5 cut(s) 146, 160, 388, 440, 1208
FspBI CTAG 3 cut(s) 623, 921, 1025
GluI GCNGC 5 cut(s) 146, 160, 388, 440, 1208
GsaI CCCAGC 1 cut(s) 597
HaeIII GGCC 6 cut(s) 83, 159, 387, 615, 1145, 1221
HgaI GACGC 1 cut(s) 431
Hin1II CATG 3 cut(s) 232, 917, 1066
HphI GGTGA 3 cut(s) 31, 244, 1093
Hpy166II GTNNAC 2 cut(s) 195, 879
Hpy8I GTNNAC 2 cut(s) 195, 879
HpyAV CCTTC 8 cut(s) 181, 323, 409, 637, 865, 948, 1243, 1283
HpyCH4III ACNGT 1 cut(s) 842
HpyCH4IV ACGT 4 cut(s) 75, 303, 531, 1137
HpyCH4V TGCA 6 cut(s) 4, 232, 460, 658, 688, 1066
HpyF10VI GCNNNNNNNGC 2 cut(s) 664, 1180
HpyF3I CTNAG 2 cut(s) 218, 668
HpySE526I ACGT 4 cut(s) 75, 303, 531, 1137
Hsp92II CATG 3 cut(s) 232, 917, 1066
Kpn2I TCCGGA 1 cut(s) 112
KspI CCGCGG 2 cut(s) 907, 1285
LmnI GCTCC 1 cut(s) 518
Lsp1109I GCAGC 3 cut(s) 157, 426, 1219
LweI GCATC 4 cut(s) 114, 667, 675, 1028
MaeI CTAG 3 cut(s) 623, 921, 1025
MaeII ACGT 4 cut(s) 75, 303, 531, 1137
MfeI CAATTG 2 cut(s) 602, 830
MflI RGATCY 7 cut(s) 6, 87, 234, 462, 690, 1068, 1149
MhlI GDGCHC 4 cut(s) 59, 515, 669, 1121
MluCI AATT 6 cut(s) 333, 543, 602, 830, 941, 1007
MlyI GAGTC 5 cut(s) 200, 418, 613, 697, 884
MmeI TCCRAC 1 cut(s) 312
MroI TCCGGA 1 cut(s) 112
MroXI GAANNNNTTC 1 cut(s) 333
MseI TTAA 1 cut(s) 1085
MspA1I CMGCKG 2 cut(s) 906, 1284
MspR9I CCNGG 4 cut(s) 92, 320, 341, 449
MunI CAATTG 2 cut(s) 602, 830
MvaI CCWGG 2 cut(s) 92, 320
MvnI CGCG 2 cut(s) 906, 1284
MwoI GCNNNNNNNGC 2 cut(s) 664, 1180
NciI CCSGG 2 cut(s) 341, 449
NlaIII CATG 3 cut(s) 232, 917, 1066
NspI RCATGY 2 cut(s) 232, 917
PaeI GCATGC 2 cut(s) 232, 917
PaeR7I CTCGAG 6 cut(s) 44, 149, 272, 500, 1106, 1211
PcsI WCGNNNNNNNCGW 2 cut(s) 513, 716
PdmI GAANNNNTTC 1 cut(s) 333
PfeI GAWTC 7 cut(s) 419, 562, 772, 789, 1049, 1167, 1253
PflFI GACNNNGTC 4 cut(s) 74, 530, 758, 1136
PfoI TCCNGGA 2 cut(s) 90, 318
PkrI GCNGC 5 cut(s) 147, 161, 389, 441, 1209
Ple19I CGATCG 1 cut(s) 1131
PleI GAGTC 5 cut(s) 199, 418, 613, 697, 883
PpsI GAGTC 5 cut(s) 199, 418, 613, 697, 883
PsiI TTATAA 3 cut(s) 633, 861, 1239
Psp124BI GAGCTC 3 cut(s) 59, 515, 1121
Psp6I CCWGG 2 cut(s) 90, 318
PspFI CCCAGC 1 cut(s) 593
PspGI CCWGG 2 cut(s) 90, 318
PspPI GGNCC 5 cut(s) 115, 208, 343, 571, 799
PspXI VCTCGAGB 4 cut(s) 44, 149, 1106, 1211
PstNI CAGNNNCTG 1 cut(s) 355
PsuI RGATCY 7 cut(s) 6, 87, 234, 462, 690, 1068, 1149
PsyI GACNNNGTC 4 cut(s) 74, 530, 758, 1136
PvuI CGATCG 1 cut(s) 1131
RsaI GTAC 1 cut(s) 652
RsaNI GTAC 1 cut(s) 651
SacI GAGCTC 3 cut(s) 59, 515, 1121
SacII CCGCGG 2 cut(s) 907, 1285
SaqAI TTAA 1 cut(s) 1085
SatI GCNGC 5 cut(s) 146, 160, 388, 440, 1208
Sau96I GGNCC 5 cut(s) 115, 208, 343, 571, 799
ScaI AGTACT 1 cut(s) 652
SchI GAGTC 5 cut(s) 200, 418, 613, 697, 884
ScrFI CCNGG 4 cut(s) 92, 320, 341, 449
SduI GDGCHC 4 cut(s) 59, 515, 669, 1121
SfaNI GCATC 4 cut(s) 114, 667, 675, 1028
Sfr274I CTCGAG 6 cut(s) 44, 149, 272, 500, 1106, 1211
Sfr303I CCGCGG 2 cut(s) 907, 1285
SgrBI CCGCGG 2 cut(s) 907, 1285
SinI GGWCC 5 cut(s) 115, 208, 343, 571, 799
SlaI CTCGAG 6 cut(s) 44, 149, 272, 500, 1106, 1211
SmlI CTYRAG 7 cut(s) 44, 149, 272, 500, 728, 1106, 1211
SmoI CTYRAG 7 cut(s) 44, 149, 272, 500, 728, 1106, 1211
SpeI ACTAGT 1 cut(s) 920
SphI GCATGC 2 cut(s) 232, 917
Sse9I AATT 6 cut(s) 333, 543, 602, 830, 941, 1007
SspI AATATT 2 cut(s) 637, 1243
SspMI CTAG 3 cut(s) 623, 921, 1025
SstI GAGCTC 3 cut(s) 59, 515, 1121
StyD4I CCNGG 4 cut(s) 90, 318, 339, 447
TaaI ACNGT 1 cut(s) 842
TaiI ACGT 4 cut(s) 78, 306, 534, 1140
TasI AATT 6 cut(s) 333, 543, 602, 830, 941, 1007
TatI WGTACW 1 cut(s) 650
TauI GCSGC 2 cut(s) 162, 390
TfiI GAWTC 7 cut(s) 419, 562, 772, 789, 1049, 1167, 1253
Tru1I TTAA 1 cut(s) 1085
Tru9I TTAA 1 cut(s) 1085
TseI GCWGC 3 cut(s) 145, 439, 1207
TspDTI ATGAA 2 cut(s) 987, 1026
TspGWI ACGGA 1 cut(s) 203
Tth111I GACNNNGTC 4 cut(s) 74, 530, 758, 1136
VpaK11BI GGWCC 5 cut(s) 115, 208, 343, 571, 799
XapI RAATTY 3 cut(s) 333, 543, 1007
XceI RCATGY 2 cut(s) 232, 917
XhoI CTCGAG 6 cut(s) 44, 149, 272, 500, 1106, 1211
XmiI GTMKAC 2 cut(s) 194, 878
XmnI GAANNNNTTC 1 cut(s) 333
XspI CTAG 3 cut(s) 623, 921, 1025
ZrmI AGTACT 1 cut(s) 652
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.