MD03G1211300.v1.1

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
malus_domestica
Chr03
OG0017475
Physical Location & Seq
Reverse (-)
29047869 .. 29049037
1169 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1211300.v1.1.491

Sequence Viewer

Length: 1146 bp
ATGCAGATCTTTGTGAAAACCCTCACAGGCAAGACCATCACCCTCGAGGTTGAAAGCTCTGACACTATTGATAATGTCAAAGCCAAGATCCAAGACAAGGAGGGCATTCCCCCAGACCAGCAAAGGCTGATCTTTGCTGGCAAGCAGCTTGAGGATGGCCGCACCCTCGCCGACTACAACATACAGAAGGAGTCCACCCTCCACCTGGTGCTTCGTCTCCGTGGTGGCATGCAAATATTTGTCAAGACCCTCACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCTGACACGATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAGGGTATCCCACCAGACCAGCAGAGGCTGATCTTTGCTGGCAAGCAGCTTGAGGACGGCCGCACCCTCGCTGACTACAACATCCAGAAGGAGTCTACCCTTCACTTGGTTCTCCGTCTTCGTGGTGGTATGCAAATCTTTGTCAAGACCCTTACCGGTAAGACAATCACCTTGGAAGTTGAAAGCTCGGATACCATTGATAATGTCAAGGCAAAGATCCAGGATAAGGAGGGCATTCCCCCAGACCAGCAGAGGCTCATCTTCGCTGGTAAGCAGCTTGAAGATGGTCGCACACTTGCTGATTATAACATTCAAAAGGAATCGACTCTCCACTTGGTGCTCCGATTGCGTGGTGGTATGCAAATCTTTGTGAAGACCTTGACTGGAAAAACCATTACCCTAGAAGTTGAAAGTTCTGATACAATTGATAATGTGAAGGCCAAAATCCAGGACAAGGAGGGCATTCCCCCAGACCAACAAAGGTTGATCTTTGCAGGCAAGCAGCTTGAGGACGGAAGGACACTTGCTGACTACAACATTCAAAAGGAGTCCACTCTGCACTTGGTGCTTCGTCTGCGTGGTGGGATGCAGATCTTTGTGAAGACATTGACTGGGAAGACAATAACATTGGAAGTAGAGAGTTCTGATACCATCGATAATGTGAAAGCAAAGATCCAGGACAAGGAGGGCATTCCTCCGGACCAGCAGAGGCTTATCTTTGCCGGTAAGCAGCTGGAGGACGGGAGGACCCTTGCGGATTACAACATCCAAAAGGAGTCTACCCTTCACCTTGTCCTTCGCCTCCGTGGTGGTTTCTGA

Protein Analysis

382

Amino Acids

42.7

Weight (kDa)

7.0

Isoelectric Point (pI)

29.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 77 - 147 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 153 - 223 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 155 - 226 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 229 - 299 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 231 - 302 1.1e-31 Ubiquitin family
Rad60-SLD PF11976 305 - 375 8.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 307 - 378 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)
AanI TTATAA 1 cut(s) 633
AbsI CCTCGAGG 1 cut(s) 44
AccI GTMKAC 2 cut(s) 422, 1106
AccIII TCCGGA 1 cut(s) 1024
AciI CCGC 3 cut(s) 160, 388, 1082
AclWI GGATC 4 cut(s) 82, 310, 538, 994
AcoI YGGCCR 2 cut(s) 157, 385
AdeI CACNNNGTG 3 cut(s) 208, 664, 892
AfiI CCNNNNNNNGG 6 cut(s) 97, 205, 433, 553, 781, 1009
AgeI ACCGGT 1 cut(s) 482
AgsI TTSAA 6 cut(s) 53, 509, 608, 641, 737, 869
AjnI CCWGG 4 cut(s) 204, 546, 774, 1002
AluBI AGCT 8 cut(s) 57, 148, 285, 376, 513, 604, 832, 1060
AluI AGCT 8 cut(s) 57, 148, 285, 376, 513, 604, 832, 1060
Alw21I GWGCWC 2 cut(s) 287, 669
Alw26I GTCTC 1 cut(s) 221
AlwI GGATC 4 cut(s) 82, 310, 538, 994
AlwNI CAGNNNCTG 1 cut(s) 355
Ama87I CYCGRG 1 cut(s) 44
Aor13HI TCCGGA 1 cut(s) 1024
AoxI GGCC 4 cut(s) 157, 309, 385, 765
ApeKI GCWGC 5 cut(s) 145, 373, 601, 829, 1057
ArsI GACNNNNNNTTYG 2 cut(s) 253, 285
AsiGI ACCGGT 1 cut(s) 482
AspS9I GGNCC 2 cut(s) 1027, 1074
AsuHPI GGTGA 4 cut(s) 31, 244, 487, 1106
AvaI CYCGRG 1 cut(s) 44
AvaII GGWCC 2 cut(s) 1027, 1074
BanII GRGCYC 1 cut(s) 287
BbsI GAAGAC 4 cut(s) 437, 707, 935, 950
Bbv12I GWGCWC 2 cut(s) 287, 669
BbvI GCAGC 5 cut(s) 157, 385, 613, 841, 1069
BccI CCATC 5 cut(s) 44, 149, 272, 605, 986
BceAI ACGGC 1 cut(s) 400
BciT130I CCWGG 4 cut(s) 206, 548, 776, 1004
BciVI GTATCC 2 cut(s) 344, 511
BcoDI GTCTC 1 cut(s) 221
BfaI CTAG 1 cut(s) 728
BfuI GTATCC 2 cut(s) 344, 511
BglII AGATCT 2 cut(s) 6, 918
BisI GCNGC 7 cut(s) 146, 160, 374, 388, 602, 830, 1058
BlsI GCNGC 7 cut(s) 147, 161, 375, 389, 603, 831, 1059
Bme1390I CCNGG 4 cut(s) 206, 548, 776, 1004
Bme18I GGWCC 2 cut(s) 1027, 1074
BmeT110I CYCGRG 1 cut(s) 44
BmgT120I GGNCC 2 cut(s) 1027, 1074
BmiI GGNNCC 1 cut(s) 1076
BmrFI CCNGG 4 cut(s) 206, 548, 776, 1004
BmrI ACTGGG 1 cut(s) 948
BmsI GCATC 1 cut(s) 903
BmuI ACTGGG 1 cut(s) 948
BpiI GAAGAC 4 cut(s) 437, 707, 935, 950
BpmI CTGGAG 1 cut(s) 1082
BpuEI CTTGAG 3 cut(s) 170, 398, 854
Bsa29I ATCGAT 1 cut(s) 981
BsaBI GATNNNNATC 1 cut(s) 917
BsaJI CCNNGG 3 cut(s) 220, 498, 1132
BsaWI WCCGGW 3 cut(s) 254, 482, 1024
Bsc4I CCNNNNNNNGG 6 cut(s) 97, 205, 433, 553, 781, 1009
Bse118I RCCGGY 2 cut(s) 482, 1049
Bse1I ACTGG 2 cut(s) 715, 943
Bse8I GATNNNNATC 1 cut(s) 917
BseAI TCCGGA 1 cut(s) 1024
BseBI CCWGG 4 cut(s) 206, 548, 776, 1004
BseCI ATCGAT 1 cut(s) 981
BseDI CCNNGG 3 cut(s) 220, 498, 1132
BseGI GGATG 4 cut(s) 160, 408, 918, 1092
BseJI GATNNNNATC 1 cut(s) 917
BseLI CCNNNNNNNGG 6 cut(s) 97, 205, 433, 553, 781, 1009
BseNI ACTGG 2 cut(s) 715, 943
BseX3I CGGCCG 1 cut(s) 385
BseXI GCAGC 5 cut(s) 157, 385, 613, 841, 1069
BsgI GTGCAG 1 cut(s) 869
Bsh1285I CGRYCG 1 cut(s) 388
BshFI GGCC 4 cut(s) 159, 311, 387, 767
BshTI ACCGGT 1 cut(s) 482
BshVI ATCGAT 1 cut(s) 981
BsiEI CGRYCG 1 cut(s) 388
BsiHKAI GWGCWC 2 cut(s) 287, 669
BsiHKCI CYCGRG 1 cut(s) 44
BsiSI CCGG 4 cut(s) 255, 483, 1025, 1050
BslI CCNNNNNNNGG 6 cut(s) 97, 205, 433, 553, 781, 1009
BsmAI GTCTC 1 cut(s) 221
BsmBI CGTCTC 1 cut(s) 221
BsmI GAATGC 4 cut(s) 105, 561, 789, 1017
BsnI GGCC 4 cut(s) 159, 311, 387, 767
BsoBI CYCGRG 1 cut(s) 44
Bsp1286I GDGCHC 2 cut(s) 287, 669
Bsp13I TCCGGA 1 cut(s) 1024
Bsp143I GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
BspACI CCGC 3 cut(s) 160, 388, 1082
BspANI GGCC 4 cut(s) 159, 311, 387, 767
BspDI ATCGAT 1 cut(s) 981
BspEI TCCGGA 1 cut(s) 1024
BspLI GGNNCC 1 cut(s) 1076
BspPI GGATC 4 cut(s) 82, 310, 538, 994
BsrFI RCCGGY 2 cut(s) 482, 1049
BsrI ACTGG 2 cut(s) 715, 943
BssAI RCCGGY 2 cut(s) 482, 1049
BssECI CCNNGG 3 cut(s) 220, 498, 1132
BssMI GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
BssT1I CCWWGG 1 cut(s) 498
Bst2UI CCWGG 4 cut(s) 206, 548, 776, 1004
BstAPI GCANNNNNTGC 1 cut(s) 892
BstC8I GCNNGC 7 cut(s) 139, 143, 230, 367, 371, 823, 827
BstDSI CCRYGG 2 cut(s) 220, 1132
BstF5I GGATG 4 cut(s) 160, 408, 918, 1092
BstKTI GATC 9 cut(s) 9, 90, 132, 318, 360, 546, 816, 921, 1002
BstMAI GTCTC 1 cut(s) 221
BstMBI GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
BstMCI CGRYCG 1 cut(s) 388
BstMWI GCNNNNNNNGC 3 cut(s) 673, 892, 901
BstNI CCWGG 4 cut(s) 206, 548, 776, 1004
BstNSI RCATGY 1 cut(s) 232
BstSCI CCNGG 4 cut(s) 204, 546, 774, 1002
BstV1I GCAGC 5 cut(s) 157, 385, 613, 841, 1069
BstV2I GAAGAC 4 cut(s) 437, 707, 935, 950
BstX2I RGATCY 6 cut(s) 6, 87, 315, 543, 918, 999
BstXI CCANNNNNNTGG 1 cut(s) 271
BstYI RGATCY 6 cut(s) 6, 87, 315, 543, 918, 999
BstZI CGGCCG 1 cut(s) 385
Bsu15I ATCGAT 1 cut(s) 981
BsuI GTATCC 2 cut(s) 344, 511
BsuRI GGCC 4 cut(s) 159, 311, 387, 767
BsuTUI ATCGAT 1 cut(s) 981
BtgI CCRYGG 2 cut(s) 220, 1132
BtsCI GGATG 4 cut(s) 160, 408, 918, 1092
Cac8I GCNNGC 7 cut(s) 139, 143, 230, 367, 371, 823, 827
CaiI CAGNNNCTG 1 cut(s) 355
Cfr10I RCCGGY 2 cut(s) 482, 1049
Cfr13I GGNCC 2 cut(s) 1027, 1074
ClaI ATCGAT 1 cut(s) 981
CsiI ACCWGGT 1 cut(s) 204
CspAI ACCGGT 1 cut(s) 482
CviAII CATG 1 cut(s) 229
DpnI GATC 9 cut(s) 8, 89, 131, 317, 359, 545, 815, 920, 1001
DpnII GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
DraIII CACNNNGTG 3 cut(s) 208, 664, 892
EaeI YGGCCR 2 cut(s) 157, 385
EagI CGGCCG 1 cut(s) 385
Ecl136II GAGCTC 1 cut(s) 285
EclXI CGGCCG 1 cut(s) 385
Eco130I CCWWGG 1 cut(s) 498
Eco24I GRGCYC 1 cut(s) 287
Eco47I GGWCC 2 cut(s) 1027, 1074
Eco52I CGGCCG 1 cut(s) 385
Eco53kI GAGCTC 1 cut(s) 285
Eco88I CYCGRG 1 cut(s) 44
EcoICRI GAGCTC 1 cut(s) 285
EcoO109I RGGNCCY 1 cut(s) 1074
EcoRII CCWGG 4 cut(s) 204, 546, 774, 1002
EcoT14I CCWWGG 1 cut(s) 498
EcoT38I GRGCYC 1 cut(s) 287
ErhI CCWWGG 1 cut(s) 498
Esp3I CGTCTC 1 cut(s) 221
FaeI CATG 1 cut(s) 232
FaiI YATR 5 cut(s) 182, 230, 458, 633, 686
FatI CATG 1 cut(s) 228
FblI GTMKAC 2 cut(s) 422, 1106
Fnu4HI GCNGC 7 cut(s) 146, 160, 374, 388, 602, 830, 1058
FokI GGATG 4 cut(s) 167, 395, 925, 1079
FriOI GRGCYC 1 cut(s) 287
Fsp4HI GCNGC 7 cut(s) 146, 160, 374, 388, 602, 830, 1058
FspBI CTAG 1 cut(s) 728
GluI GCNGC 7 cut(s) 146, 160, 374, 388, 602, 830, 1058
GsuI CTGGAG 1 cut(s) 1082
HaeIII GGCC 4 cut(s) 159, 311, 387, 767
HapII CCGG 4 cut(s) 255, 483, 1025, 1050
Hin1II CATG 1 cut(s) 232
HinfI GANTC 6 cut(s) 191, 419, 647, 652, 875, 1103
HpaII CCGG 4 cut(s) 255, 483, 1025, 1050
HphI GGTGA 4 cut(s) 31, 244, 487, 1106
Hpy166II GTNNAC 4 cut(s) 195, 423, 879, 1107
Hpy188I TCNGA 7 cut(s) 61, 289, 517, 671, 745, 973, 1145
Hpy188III TCNNGA 4 cut(s) 244, 412, 472, 1025
Hpy8I GTNNAC 4 cut(s) 195, 423, 879, 1107
HpyAV CCTTC 7 cut(s) 181, 409, 437, 757, 837, 1121, 1133
HpyCH4V TGCA 7 cut(s) 4, 232, 460, 688, 821, 886, 916
HpyF10VI GCNNNNNNNGC 3 cut(s) 673, 892, 901
Hsp92II CATG 1 cut(s) 232
Kpn2I TCCGGA 1 cut(s) 1024
Kzo9I GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
LmnI GCTCC 1 cut(s) 672
Lsp1109I GCAGC 5 cut(s) 157, 385, 613, 841, 1069
LweI GCATC 1 cut(s) 903
MabI ACCWGGT 1 cut(s) 204
MaeI CTAG 1 cut(s) 728
MalI GATC 9 cut(s) 8, 89, 131, 317, 359, 545, 815, 920, 1001
MboI GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
MboII GAAGA 6 cut(s) 437, 580, 620, 712, 940, 955
MfeI CAATTG 1 cut(s) 750
MflI RGATCY 6 cut(s) 6, 87, 315, 543, 918, 999
MhlI GDGCHC 2 cut(s) 287, 669
MluCI AATT 1 cut(s) 750
MlyI GAGTC 5 cut(s) 200, 428, 646, 884, 1112
MroI TCCGGA 1 cut(s) 1024
MspA1I CMGCKG 1 cut(s) 1060
MspI CCGG 4 cut(s) 255, 483, 1025, 1050
MspR9I CCNGG 4 cut(s) 206, 548, 776, 1004
MunI CAATTG 1 cut(s) 750
Mva1269I GAATGC 4 cut(s) 105, 561, 789, 1017
MvaI CCWGG 4 cut(s) 206, 548, 776, 1004
MwoI GCNNNNNNNGC 3 cut(s) 673, 892, 901
NdeII GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
NlaIII CATG 1 cut(s) 232
NlaIV GGNNCC 1 cut(s) 1076
NspI RCATGY 1 cut(s) 232
PaeI GCATGC 1 cut(s) 232
PaeR7I CTCGAG 1 cut(s) 44
PctI GAATGC 4 cut(s) 105, 561, 789, 1017
PfeI GAWTC 1 cut(s) 647
PfoI TCCNGGA 3 cut(s) 546, 774, 1002
PinAI ACCGGT 1 cut(s) 482
PkrI GCNGC 7 cut(s) 147, 161, 375, 389, 603, 831, 1059
PleI GAGTC 5 cut(s) 199, 427, 646, 883, 1111
PpsI GAGTC 5 cut(s) 199, 427, 646, 883, 1111
PpuMI RGGWCCY 1 cut(s) 1074
PsiI TTATAA 1 cut(s) 633
Psp124BI GAGCTC 1 cut(s) 287
Psp5II RGGWCCY 1 cut(s) 1074
Psp6I CCWGG 4 cut(s) 204, 546, 774, 1002
PspGI CCWGG 4 cut(s) 204, 546, 774, 1002
PspN4I GGNNCC 1 cut(s) 1076
PspPI GGNCC 2 cut(s) 1027, 1074
PspPPI RGGWCCY 1 cut(s) 1074
PspXI VCTCGAGB 1 cut(s) 44
PstNI CAGNNNCTG 1 cut(s) 355
PsuI RGATCY 6 cut(s) 6, 87, 315, 543, 918, 999
PvuII CAGCTG 1 cut(s) 1060
SacI GAGCTC 1 cut(s) 287
SatI GCNGC 7 cut(s) 146, 160, 374, 388, 602, 830, 1058
Sau3AI GATC 9 cut(s) 6, 87, 129, 315, 357, 543, 813, 918, 999
Sau96I GGNCC 2 cut(s) 1027, 1074
SchI GAGTC 5 cut(s) 200, 428, 646, 884, 1112
ScrFI CCNGG 4 cut(s) 206, 548, 776, 1004
SduI GDGCHC 2 cut(s) 287, 669
SexAI ACCWGGT 1 cut(s) 204
SfaNI GCATC 1 cut(s) 903
Sfr274I CTCGAG 1 cut(s) 44
SinI GGWCC 2 cut(s) 1027, 1074
SlaI CTCGAG 1 cut(s) 44
SmlI CTYRAG 4 cut(s) 44, 149, 377, 833
SmoI CTYRAG 4 cut(s) 44, 149, 377, 833
SphI GCATGC 1 cut(s) 232
Sse9I AATT 1 cut(s) 750
SsiI CCGC 3 cut(s) 160, 388, 1082
SspI AATATT 1 cut(s) 237
SspMI CTAG 1 cut(s) 728
SstI GAGCTC 1 cut(s) 287
StyD4I CCNGG 4 cut(s) 204, 546, 774, 1002
StyI CCWWGG 1 cut(s) 498
TaqI TCGA 3 cut(s) 45, 650, 981
TasI AATT 1 cut(s) 750
TauI GCSGC 2 cut(s) 162, 390
TfiI GAWTC 1 cut(s) 647
TseI GCWGC 5 cut(s) 145, 373, 601, 829, 1057
TspGWI ACGGA 4 cut(s) 209, 431, 855, 1121
VpaK11BI GGWCC 2 cut(s) 1027, 1074
XceI RCATGY 1 cut(s) 232
XcmI CCANNNNNNNNNTGG 2 cut(s) 202, 886
XhoI CTCGAG 1 cut(s) 44
XmiI GTMKAC 2 cut(s) 422, 1106
XspI CTAG 1 cut(s) 728
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.