RchiOBHm_Chr5g0003941

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
5
OG0017475
Physical Location & Seq
Reverse (-)
2458155 .. 2460706
2552 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ28522

Sequence Viewer

Length: 1149 bp
ATGATGCAAATTTTCGTGAAGACCCTCACCGGCAAGACTATCACCCTTGAGGTGGAGTCTTCTGACACCATTGACAACGTTAAGGCCAAGATCCAGGACAAGGAAGGAATTCCCCCAGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTTGAGGATGGCCGAACCCTAGCTGACTACAACATCCAAAAGGAGTCAACCCTCCACTTGGTTCTTCGTCTGCGTGGTGGTATGCAGATCTTTGTCAAGACTCTTACCGGAAAGACCATCACTCTTGAGGTTGAGAGCTCTGACACCATTGACAACGTGAAGGCTAAGATCCAGGACAAGGAGGGCATTCCCCCAGACCAGCAAAGGCTCATCTTTGCCGGCAAGCAGCTTGAGGACGGCCGCACCCTTGCAGACTATAACATCCAGAAGGAATCCACCCTCCACTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATCTTTGTCAAGACCTTGACCGGAAAGACCATCACCTTGGAGGTGGAGAGCTCAGACACCATTGACAACGTGAAGGCTAAGATCCAGGACAAGGAGGGTATCCCACCAGACCAGCAGAGGCTTATCTTTGCCGGAAAGCAGCTTGAGGACGGCCGTACCCTTGCAGACTACAACATCCAGAAGGAATCCACCCTCCATTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATTTTTGTGAAGACCTTGACCGGAAAGACCATCACCTTGGAGGTGGAGAGCTCAGACACCATTGACAATGTCAAGGCTAAGATCCAGGACAAGGAGGGTATCCCACCAGACCAGCAGAGGCTTATCTTTGCCGGAAAGCAGCTTGAGGATGGTCGTACGCTTGCTGACTATAACATCCAGAAGGAATCCACCCTCCATTTGGTGCTTCGTCTTCGTGGGGGTATGCAGATTTTTGTCAAGACCCTCACAGGGAAGACAATCACCCTTGAGGTGGAGAGCTCAGACACCATTGATAATGTGAAGGCTAAGATTCAAGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTTATCTTTGCCGGCAAGCAGCTCGAGGATGGGCGTACCCTGGCAGACTACAACATCCAGAAGGAGTCTACCCTTCACCTTGTCCTCCGTCTCCGTGGTGGTTTCTGA

Protein Analysis

382

Amino Acids

42.83

Weight (kDa)

7.0

Isoelectric Point (pI)

29.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 2 - 72 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 4 - 75 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 78 - 148 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 80 - 151 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 154 - 224 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 156 - 227 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 230 - 300 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 232 - 303 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 306 - 376 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 308 - 379 1.1e-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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Orthologous Genes (Group: OG0017475)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05320 AT4G05320 AT4G05320
fragaria_vesca FvH4_3g21751 FvH4_3g21751 FvH4_3g21853
malus_domestica MD03G1211300.v1.1
prunus_persica Prupe.4G025900_v2.0.a1 Prupe.4G025900_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0003941
rosa_samantha Rh5AG255500
rosa_wichuraiana Rw3G014130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 1109
AciI CCGC 1 cut(s) 391
AclI AACGTT 1 cut(s) 78
AclWI GGATC 6 cut(s) 85, 313, 541, 769, 1015, 1028
AcoI YGGCCR 3 cut(s) 160, 388, 616
AcsI RAATTY 3 cut(s) 9, 108, 693
AdeI CACNNNGTG 1 cut(s) 439
AfaI GTAC 3 cut(s) 622, 850, 1078
AgsI TTSAA 1 cut(s) 1007
AjnI CCWGG 5 cut(s) 93, 321, 549, 777, 1080
Alw21I GWGCWC 4 cut(s) 290, 518, 746, 974
Alw26I GTCTC 3 cut(s) 452, 680, 1136
AlwI GGATC 6 cut(s) 85, 313, 541, 769, 1015, 1028
AlwNI CAGNNNCTG 1 cut(s) 130
Ama87I CYCGRG 1 cut(s) 1064
AoxI GGCC 4 cut(s) 84, 160, 388, 616
ApeKI GCWGC 6 cut(s) 124, 148, 376, 604, 832, 1060
ApoI RAATTY 3 cut(s) 9, 108, 693
Asp700I GAANNNNTTC 1 cut(s) 108
AsuHPI GGTGA 6 cut(s) 19, 34, 490, 718, 946, 1109
AvaI CYCGRG 1 cut(s) 1064
BaeI ACNNNNGTAYC 2 cut(s) 604, 637
BamHI GGATCC 1 cut(s) 1020
BanII GRGCYC 4 cut(s) 290, 518, 746, 974
BbsI GAAGAC 5 cut(s) 26, 51, 710, 896, 953
Bbv12I GWGCWC 4 cut(s) 290, 518, 746, 974
BbvI GCAGC 6 cut(s) 136, 160, 388, 616, 844, 1072
BccI CCATC 6 cut(s) 152, 275, 503, 731, 836, 1064
BceAI ACGGC 3 cut(s) 403, 603, 631
BcgI CGANNNNNNTGC 2 cut(s) 1045, 1079
BciT130I CCWGG 5 cut(s) 95, 323, 551, 779, 1082
BciVI GTATCC 2 cut(s) 575, 803
BcoDI GTCTC 3 cut(s) 452, 680, 1136
BfaI CTAG 1 cut(s) 170
BfuI GTATCC 2 cut(s) 575, 803
BglII AGATCT 1 cut(s) 237
BisI GCNGC 7 cut(s) 125, 149, 377, 391, 605, 833, 1061
BlsI GCNGC 7 cut(s) 126, 150, 378, 392, 606, 834, 1062
Bme1390I CCNGG 5 cut(s) 95, 323, 551, 779, 1082
BmeT110I CYCGRG 1 cut(s) 1064
BmiI GGNNCC 1 cut(s) 1022
BmrFI CCNGG 5 cut(s) 95, 323, 551, 779, 1082
BpiI GAAGAC 5 cut(s) 26, 51, 710, 896, 953
BpuEI CTTGAG 7 cut(s) 68, 173, 296, 401, 629, 857, 980
BsaJI CCNNGG 6 cut(s) 451, 501, 679, 729, 1080, 1135
BsaWI WCCGGW 3 cut(s) 257, 485, 713
Bse118I RCCGGY 3 cut(s) 29, 368, 1052
BseBI CCWGG 5 cut(s) 95, 323, 551, 779, 1082
BseDI CCNNGG 6 cut(s) 451, 501, 679, 729, 1080, 1135
BseGI GGATG 8 cut(s) 163, 183, 411, 639, 847, 867, 1075, 1095
BseMII CTCAG 3 cut(s) 531, 759, 987
BseX3I CGGCCG 2 cut(s) 388, 616
BseXI GCAGC 6 cut(s) 136, 160, 388, 616, 844, 1072
Bsh1285I CGRYCG 2 cut(s) 391, 619
BshFI GGCC 4 cut(s) 86, 162, 390, 618
BsiEI CGRYCG 2 cut(s) 391, 619
BsiHKAI GWGCWC 4 cut(s) 290, 518, 746, 974
BsiHKCI CYCGRG 1 cut(s) 1064
BsiSI CCGG 8 cut(s) 30, 258, 369, 486, 597, 714, 825, 1053
BsiWI CGTACG 1 cut(s) 848
BsmAI GTCTC 3 cut(s) 452, 680, 1136
BsmBI CGTCTC 3 cut(s) 452, 680, 1136
BsmI GAATGC 1 cut(s) 336
BsnI GGCC 4 cut(s) 86, 162, 390, 618
BsoBI CYCGRG 1 cut(s) 1064
Bsp1286I GDGCHC 4 cut(s) 290, 518, 746, 974
Bsp143I GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
BspACI CCGC 1 cut(s) 391
BspANI GGCC 4 cut(s) 86, 162, 390, 618
BspCNI CTCAG 3 cut(s) 530, 758, 986
BspLI GGNNCC 1 cut(s) 1022
BspPI GGATC 6 cut(s) 85, 313, 541, 769, 1015, 1028
BsrFI RCCGGY 3 cut(s) 29, 368, 1052
BssAI RCCGGY 3 cut(s) 29, 368, 1052
BssECI CCNNGG 6 cut(s) 451, 501, 679, 729, 1080, 1135
BssMI GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
BssT1I CCWWGG 2 cut(s) 501, 729
Bst2UI CCWGG 5 cut(s) 95, 323, 551, 779, 1082
BstC8I GCNNGC 7 cut(s) 142, 146, 370, 374, 855, 1054, 1058
BstDEI CTNAG 7 cut(s) 315, 517, 543, 745, 771, 973, 999
BstDSI CCRYGG 3 cut(s) 451, 679, 1135
BstF5I GGATG 8 cut(s) 163, 183, 411, 639, 847, 867, 1075, 1095
BstKTI GATC 7 cut(s) 93, 135, 240, 321, 549, 777, 1023
BstMAI GTCTC 3 cut(s) 452, 680, 1136
BstMBI GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
BstMCI CGRYCG 2 cut(s) 391, 619
BstNI CCWGG 5 cut(s) 95, 323, 551, 779, 1082
BstSCI CCNGG 5 cut(s) 93, 321, 549, 777, 1080
BstV1I GCAGC 6 cut(s) 136, 160, 388, 616, 844, 1072
BstV2I GAAGAC 5 cut(s) 26, 51, 710, 896, 953
BstX2I RGATCY 6 cut(s) 90, 237, 318, 546, 774, 1020
BstXI CCANNNNNNTGG 2 cut(s) 502, 730
BstYI RGATCY 6 cut(s) 90, 237, 318, 546, 774, 1020
BstZI CGGCCG 2 cut(s) 388, 616
BsuI GTATCC 2 cut(s) 575, 803
BsuRI GGCC 4 cut(s) 86, 162, 390, 618
BtgI CCRYGG 3 cut(s) 451, 679, 1135
BtsCI GGATG 8 cut(s) 163, 183, 411, 639, 847, 867, 1075, 1095
Cac8I GCNNGC 7 cut(s) 142, 146, 370, 374, 855, 1054, 1058
CaiI CAGNNNCTG 1 cut(s) 130
Cfr10I RCCGGY 3 cut(s) 29, 368, 1052
CseI GACGC 1 cut(s) 116
Csp6I GTAC 3 cut(s) 621, 849, 1077
CviQI GTAC 3 cut(s) 621, 849, 1077
DdeI CTNAG 7 cut(s) 315, 517, 543, 745, 771, 973, 999
DpnI GATC 7 cut(s) 92, 134, 239, 320, 548, 776, 1022
DpnII GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
DraIII CACNNNGTG 1 cut(s) 439
EaeI YGGCCR 3 cut(s) 160, 388, 616
EagI CGGCCG 2 cut(s) 388, 616
Ecl136II GAGCTC 4 cut(s) 288, 516, 744, 972
EclXI CGGCCG 2 cut(s) 388, 616
Eco130I CCWWGG 2 cut(s) 501, 729
Eco24I GRGCYC 4 cut(s) 290, 518, 746, 974
Eco52I CGGCCG 2 cut(s) 388, 616
Eco53kI GAGCTC 4 cut(s) 288, 516, 744, 972
Eco88I CYCGRG 1 cut(s) 1064
EcoICRI GAGCTC 4 cut(s) 288, 516, 744, 972
EcoRI GAATTC 1 cut(s) 108
EcoRII CCWGG 5 cut(s) 93, 321, 549, 777, 1080
EcoT14I CCWWGG 2 cut(s) 501, 729
EcoT38I GRGCYC 4 cut(s) 290, 518, 746, 974
ErhI CCWWGG 2 cut(s) 501, 729
Esp3I CGTCTC 3 cut(s) 452, 680, 1136
FaiI YATR 6 cut(s) 233, 408, 461, 689, 864, 917
FblI GTMKAC 1 cut(s) 1109
Fnu4HI GCNGC 7 cut(s) 125, 149, 377, 391, 605, 833, 1061
FokI GGATG 8 cut(s) 170, 170, 398, 626, 854, 854, 1082, 1082
FriOI GRGCYC 4 cut(s) 290, 518, 746, 974
Fsp4HI GCNGC 7 cut(s) 125, 149, 377, 391, 605, 833, 1061
FspBI CTAG 1 cut(s) 170
GluI GCNGC 7 cut(s) 125, 149, 377, 391, 605, 833, 1061
HaeIII GGCC 4 cut(s) 86, 162, 390, 618
HapII CCGG 8 cut(s) 30, 258, 369, 486, 597, 714, 825, 1053
HgaI GACGC 1 cut(s) 116
HincII GTYRAC 1 cut(s) 198
HindII GTYRAC 1 cut(s) 198
HinfI GANTC 8 cut(s) 56, 194, 250, 422, 650, 878, 1003, 1106
HpaII CCGG 8 cut(s) 30, 258, 369, 486, 597, 714, 825, 1053
HphI GGTGA 6 cut(s) 19, 34, 490, 718, 946, 1109
Hpy166II GTNNAC 2 cut(s) 198, 1110
Hpy188I TCNGA 7 cut(s) 64, 132, 292, 520, 748, 976, 1148
Hpy8I GTNNAC 2 cut(s) 198, 1110
HpyAV CCTTC 9 cut(s) 98, 304, 412, 532, 640, 868, 988, 1096, 1124
HpyCH4IV ACGT 3 cut(s) 78, 306, 534
HpyCH4V TGCA 7 cut(s) 7, 235, 401, 463, 629, 691, 919
HpyF3I CTNAG 7 cut(s) 315, 517, 543, 745, 771, 973, 999
HpySE526I ACGT 3 cut(s) 78, 306, 534
KroI GCCGGC 2 cut(s) 368, 1052
KroNI GCCGGC 2 cut(s) 370, 1054
Kzo9I GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
Lsp1109I GCAGC 6 cut(s) 136, 160, 388, 616, 844, 1072
MaeI CTAG 1 cut(s) 170
MaeII ACGT 3 cut(s) 78, 306, 534
MalI GATC 7 cut(s) 92, 134, 239, 320, 548, 776, 1022
MboI GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
MboII GAAGA 6 cut(s) 31, 51, 206, 715, 896, 958
MflI RGATCY 6 cut(s) 90, 237, 318, 546, 774, 1020
MhlI GDGCHC 4 cut(s) 290, 518, 746, 974
MluCI AATT 3 cut(s) 9, 108, 693
MlyI GAGTC 4 cut(s) 65, 203, 244, 1115
MroNI GCCGGC 2 cut(s) 368, 1052
MroXI GAANNNNTTC 1 cut(s) 108
MseI TTAA 1 cut(s) 81
MspI CCGG 8 cut(s) 30, 258, 369, 486, 597, 714, 825, 1053
MspR9I CCNGG 5 cut(s) 95, 323, 551, 779, 1082
Mva1269I GAATGC 1 cut(s) 336
MvaI CCWGG 5 cut(s) 95, 323, 551, 779, 1082
NaeI GCCGGC 2 cut(s) 370, 1054
NdeII GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
NgoMIV GCCGGC 2 cut(s) 368, 1052
NlaIV GGNNCC 1 cut(s) 1022
PaeR7I CTCGAG 1 cut(s) 1064
PctI GAATGC 1 cut(s) 336
PdiI GCCGGC 2 cut(s) 370, 1054
PdmI GAANNNNTTC 1 cut(s) 108
PfeI GAWTC 4 cut(s) 422, 650, 878, 1003
Pfl23II CGTACG 1 cut(s) 848
PflFI GACNNNGTC 1 cut(s) 761
PfoI TCCNGGA 4 cut(s) 93, 321, 549, 777
PkrI GCNGC 7 cut(s) 126, 150, 378, 392, 606, 834, 1062
PleI GAGTC 4 cut(s) 64, 202, 244, 1114
PpsI GAGTC 4 cut(s) 64, 202, 244, 1114
Psp124BI GAGCTC 4 cut(s) 290, 518, 746, 974
Psp1406I AACGTT 1 cut(s) 78
Psp6I CCWGG 5 cut(s) 93, 321, 549, 777, 1080
PspGI CCWGG 5 cut(s) 93, 321, 549, 777, 1080
PspLI CGTACG 1 cut(s) 848
PspN4I GGNNCC 1 cut(s) 1022
PspXI VCTCGAGB 1 cut(s) 1064
PstNI CAGNNNCTG 1 cut(s) 130
PsuI RGATCY 6 cut(s) 90, 237, 318, 546, 774, 1020
PsyI GACNNNGTC 1 cut(s) 761
RsaI GTAC 3 cut(s) 622, 850, 1078
RsaNI GTAC 3 cut(s) 621, 849, 1077
SacI GAGCTC 4 cut(s) 290, 518, 746, 974
SaqAI TTAA 1 cut(s) 81
SatI GCNGC 7 cut(s) 125, 149, 377, 391, 605, 833, 1061
Sau3AI GATC 7 cut(s) 90, 132, 237, 318, 546, 774, 1020
SchI GAGTC 4 cut(s) 65, 203, 244, 1115
ScrFI CCNGG 5 cut(s) 95, 323, 551, 779, 1082
SduI GDGCHC 4 cut(s) 290, 518, 746, 974
Sfr274I CTCGAG 1 cut(s) 1064
SlaI CTCGAG 1 cut(s) 1064
SmlI CTYRAG 8 cut(s) 47, 152, 275, 380, 608, 836, 959, 1064
SmoI CTYRAG 8 cut(s) 47, 152, 275, 380, 608, 836, 959, 1064
Sse9I AATT 3 cut(s) 9, 108, 693
SsiI CCGC 1 cut(s) 391
SspMI CTAG 1 cut(s) 170
SstI GAGCTC 4 cut(s) 290, 518, 746, 974
StyD4I CCNGG 5 cut(s) 93, 321, 549, 777, 1080
StyI CCWWGG 2 cut(s) 501, 729
TaiI ACGT 3 cut(s) 81, 309, 537
TaqI TCGA 1 cut(s) 1065
TasI AATT 3 cut(s) 9, 108, 693
TauI GCSGC 1 cut(s) 393
TfiI GAWTC 4 cut(s) 422, 650, 878, 1003
Tru1I TTAA 1 cut(s) 81
Tru9I TTAA 1 cut(s) 81
TseI GCWGC 6 cut(s) 124, 148, 376, 604, 832, 1060
TspGWI ACGGA 4 cut(s) 440, 668, 1118, 1124
Tth111I GACNNNGTC 1 cut(s) 761
XapI RAATTY 3 cut(s) 9, 108, 693
XcmI CCANNNNNNNNNTGG 3 cut(s) 433, 661, 889
XhoI CTCGAG 1 cut(s) 1064
XmiI GTMKAC 1 cut(s) 1109
XmnI GAANNNNTTC 1 cut(s) 108
XspI CTAG 1 cut(s) 170
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.