Rw5G003270

polyubiquitin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0021843
Physical Location & Seq
Reverse (-)
3016599 .. 3019488
2890 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G003270.1

Sequence Viewer

Length: 738 bp
ATGTTGGCCAGGGTGGTACTATTGAAATTTTCAATGGGAGCGTTATCGATGCAAATTTTCGTGAAGACCCTCACCGGCAAGACTATCACCCTTGAGGTGGAGTCTTCTGACACCATTGACAACGTTAAGGCCAAGATCCAGGATAAGGAAGGCATTCCCCCAGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTTGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAGGAGTCAACCCTCCACTTGGTGCTTCGTCTCCGTGGTGGCATGCAGATCTTTGTCAAGACTCTGACCGGAAAGACCATCACTCTTGAGGTTGAGAGCTCTGACACCATTGACAATGTGAAGGCCAAGATCCAGGACAAGGAGGGCATTCCCCCAGACCAGCAGAGGCTCATCTTTGCCGGCAAGCAGCTTGAGGACGGCCGCACCCTTGCAGACTATAACATCCAGAAGGAATCCACCCTCCACTTGGTGCTTCGGCTCCGTGGTGGTATGCAGATCTTTGTCAAGACCTTGACCGGAAAGACCATCACCTTGGAGGTGGAGAGCTCAGACACCATTGATAATGTGAAGGCTAAGATTCAAGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTTATCTTTGCCGGCAAGCAGCTCGAGGATGGGCGTACCCTTGCAGACTACAACATCCAGAAGGAGTCTACCCTTCACCTTGTCCTCCGTCTCCGTGGTGGTTTCTGA
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

245

Amino Acids

27.4

Weight (kDa)

8.63

Isoelectric Point (pI)

27.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 17 - 87 3.9e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 19 - 90 4.9e-32 Ubiquitin family
Rad60-SLD PF11976 93 - 163 3.9e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 95 - 166 4.9e-32 Ubiquitin family
Rad60-SLD PF11976 169 - 239 3.9e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 171 - 242 4.9e-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: OG0021843)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G55060
malus_domestica MD07G1147300.v1.1
prunus_persica Prupe.4G203900_v2.0.a1
rosa_wichuraiana Rw5G003270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 698
AciI CCGC 1 cut(s) 436
AclI AACGTT 1 cut(s) 123
AclWI GGATC 4 cut(s) 130, 358, 604, 617
AcoI YGGCCR 3 cut(s) 6, 205, 433
AcsI RAATTY 2 cut(s) 26, 54
AdeI CACNNNGTG 2 cut(s) 256, 484
AfaI GTAC 2 cut(s) 18, 667
AfiI CCNNNNNNNGG 5 cut(s) 97, 145, 253, 373, 481
AgsI TTSAA 3 cut(s) 25, 33, 596
AjnI CCWGG 3 cut(s) 8, 138, 366
AluBI AGCT 5 cut(s) 196, 333, 424, 561, 652
AluI AGCT 5 cut(s) 196, 333, 424, 561, 652
Alw21I GWGCWC 2 cut(s) 335, 563
Alw26I GTCTC 2 cut(s) 269, 725
AlwI GGATC 4 cut(s) 130, 358, 604, 617
AlwNI CAGNNNCTG 1 cut(s) 175
Ama87I CYCGRG 1 cut(s) 653
AoxI GGCC 5 cut(s) 6, 129, 205, 357, 433
ApeKI GCWGC 4 cut(s) 169, 193, 421, 649
ApoI RAATTY 2 cut(s) 26, 54
Asp700I GAANNNNTTC 1 cut(s) 153
AsuHPI GGTGA 4 cut(s) 64, 79, 535, 698
AvaI CYCGRG 1 cut(s) 653
BalI TGGCCA 1 cut(s) 8
BamHI GGATCC 1 cut(s) 609
BanII GRGCYC 2 cut(s) 335, 563
BbsI GAAGAC 2 cut(s) 71, 96
Bbv12I GWGCWC 2 cut(s) 335, 563
BbvI GCAGC 4 cut(s) 181, 205, 433, 661
BccI CCATC 4 cut(s) 197, 320, 548, 653
BceAI ACGGC 1 cut(s) 448
BcgI CGANNNNNNTGC 2 cut(s) 634, 668
BciT130I CCWGG 3 cut(s) 10, 140, 368
BcoDI GTCTC 2 cut(s) 269, 725
BglII AGATCT 2 cut(s) 282, 510
BisI GCNGC 5 cut(s) 170, 194, 422, 436, 650
BlsI GCNGC 5 cut(s) 171, 195, 423, 437, 651
Bme1390I CCNGG 3 cut(s) 10, 140, 368
BmeT110I CYCGRG 1 cut(s) 653
BmiI GGNNCC 2 cut(s) 494, 611
BmrFI CCNGG 3 cut(s) 10, 140, 368
BmsI GCATC 1 cut(s) 39
BpiI GAAGAC 2 cut(s) 71, 96
BpuEI CTTGAG 4 cut(s) 113, 218, 341, 446
Bsa29I ATCGAT 1 cut(s) 47
BsaJI CCNNGG 5 cut(s) 9, 268, 496, 546, 724
BsaWI WCCGGW 2 cut(s) 302, 530
Bsc4I CCNNNNNNNGG 5 cut(s) 97, 145, 253, 373, 481
Bse118I RCCGGY 3 cut(s) 74, 413, 641
BseBI CCWGG 3 cut(s) 10, 140, 368
BseCI ATCGAT 1 cut(s) 47
BseDI CCNNGG 5 cut(s) 9, 268, 496, 546, 724
BseGI GGATG 5 cut(s) 208, 228, 456, 664, 684
BseLI CCNNNNNNNGG 5 cut(s) 97, 145, 253, 373, 481
BseMII CTCAG 1 cut(s) 576
BseX3I CGGCCG 1 cut(s) 433
BseXI GCAGC 4 cut(s) 181, 205, 433, 661
Bsh1285I CGRYCG 1 cut(s) 436
BshFI GGCC 5 cut(s) 8, 131, 207, 359, 435
BshVI ATCGAT 1 cut(s) 47
BsiEI CGRYCG 1 cut(s) 436
BsiHKAI GWGCWC 2 cut(s) 335, 563
BsiHKCI CYCGRG 1 cut(s) 653
BsiSI CCGG 5 cut(s) 75, 303, 414, 531, 642
BslI CCNNNNNNNGG 5 cut(s) 97, 145, 253, 373, 481
BsmAI GTCTC 2 cut(s) 269, 725
BsmBI CGTCTC 2 cut(s) 269, 725
BsmI GAATGC 2 cut(s) 153, 381
BsnI GGCC 5 cut(s) 8, 131, 207, 359, 435
BsoBI CYCGRG 1 cut(s) 653
Bsp1286I GDGCHC 2 cut(s) 335, 563
Bsp143I GATC 6 cut(s) 135, 177, 282, 363, 510, 609
BspACI CCGC 1 cut(s) 436
BspANI GGCC 5 cut(s) 8, 131, 207, 359, 435
BspCNI CTCAG 1 cut(s) 575
BspDI ATCGAT 1 cut(s) 47
BspLI GGNNCC 2 cut(s) 494, 611
BspPI GGATC 4 cut(s) 130, 358, 604, 617
BsrFI RCCGGY 3 cut(s) 74, 413, 641
BssAI RCCGGY 3 cut(s) 74, 413, 641
BssECI CCNNGG 5 cut(s) 9, 268, 496, 546, 724
BssMI GATC 6 cut(s) 135, 177, 282, 363, 510, 609
BssT1I CCWWGG 1 cut(s) 546
Bst2UI CCWGG 3 cut(s) 10, 140, 368
BstC8I GCNNGC 7 cut(s) 187, 191, 278, 415, 419, 643, 647
BstDEI CTNAG 2 cut(s) 562, 588
BstDSI CCRYGG 3 cut(s) 268, 496, 724
BstF5I GGATG 5 cut(s) 208, 228, 456, 664, 684
BstKTI GATC 6 cut(s) 138, 180, 285, 366, 513, 612
BstMAI GTCTC 2 cut(s) 269, 725
BstMBI GATC 6 cut(s) 135, 177, 282, 363, 510, 609
BstMCI CGRYCG 1 cut(s) 436
BstNI CCWGG 3 cut(s) 10, 140, 368
BstNSI RCATGY 1 cut(s) 280
BstSCI CCNGG 3 cut(s) 8, 138, 366
BstV1I GCAGC 4 cut(s) 181, 205, 433, 661
BstV2I GAAGAC 2 cut(s) 71, 96
BstX2I RGATCY 5 cut(s) 135, 282, 363, 510, 609
BstXI CCANNNNNNTGG 1 cut(s) 547
BstYI RGATCY 5 cut(s) 135, 282, 363, 510, 609
BstZI CGGCCG 1 cut(s) 433
Bsu15I ATCGAT 1 cut(s) 47
BsuRI GGCC 5 cut(s) 8, 131, 207, 359, 435
BsuTUI ATCGAT 1 cut(s) 47
BtgI CCRYGG 3 cut(s) 268, 496, 724
BtsCI GGATG 5 cut(s) 208, 228, 456, 664, 684
Cac8I GCNNGC 7 cut(s) 187, 191, 278, 415, 419, 643, 647
CaiI CAGNNNCTG 1 cut(s) 175
Cfr10I RCCGGY 3 cut(s) 74, 413, 641
ClaI ATCGAT 1 cut(s) 47
CseI GACGC 1 cut(s) 161
Csp6I GTAC 2 cut(s) 17, 666
CviAII CATG 1 cut(s) 277
CviQI GTAC 2 cut(s) 17, 666
DdeI CTNAG 2 cut(s) 562, 588
DpnI GATC 6 cut(s) 137, 179, 284, 365, 512, 611
DpnII GATC 6 cut(s) 135, 177, 282, 363, 510, 609
DraIII CACNNNGTG 2 cut(s) 256, 484
EaeI YGGCCR 3 cut(s) 6, 205, 433
EagI CGGCCG 1 cut(s) 433
Ecl136II GAGCTC 2 cut(s) 333, 561
EclXI CGGCCG 1 cut(s) 433
Eco130I CCWWGG 1 cut(s) 546
Eco24I GRGCYC 2 cut(s) 335, 563
Eco52I CGGCCG 1 cut(s) 433
Eco53kI GAGCTC 2 cut(s) 333, 561
Eco88I CYCGRG 1 cut(s) 653
EcoICRI GAGCTC 2 cut(s) 333, 561
EcoRII CCWGG 3 cut(s) 8, 138, 366
EcoT14I CCWWGG 1 cut(s) 546
EcoT38I GRGCYC 2 cut(s) 335, 563
ErhI CCWWGG 1 cut(s) 546
Esp3I CGTCTC 2 cut(s) 269, 725
FaeI CATG 1 cut(s) 280
FaiI YATR 3 cut(s) 278, 453, 506
FatI CATG 1 cut(s) 276
FblI GTMKAC 1 cut(s) 698
Fnu4HI GCNGC 5 cut(s) 170, 194, 422, 436, 650
FokI GGATG 5 cut(s) 215, 215, 443, 671, 671
FriOI GRGCYC 2 cut(s) 335, 563
Fsp4HI GCNGC 5 cut(s) 170, 194, 422, 436, 650
GluI GCNGC 5 cut(s) 170, 194, 422, 436, 650
HaeIII GGCC 5 cut(s) 8, 131, 207, 359, 435
HapII CCGG 5 cut(s) 75, 303, 414, 531, 642
HgaI GACGC 1 cut(s) 161
Hin1II CATG 1 cut(s) 280
HincII GTYRAC 1 cut(s) 243
HindII GTYRAC 1 cut(s) 243
HinfI GANTC 6 cut(s) 101, 239, 295, 467, 592, 695
HpaII CCGG 5 cut(s) 75, 303, 414, 531, 642
HphI GGTGA 4 cut(s) 64, 79, 535, 698
Hpy166II GTNNAC 2 cut(s) 243, 699
Hpy188I TCNGA 6 cut(s) 109, 177, 300, 337, 565, 737
Hpy188III TCNNGA 8 cut(s) 61, 232, 292, 320, 460, 520, 596, 688
Hpy8I GTNNAC 2 cut(s) 243, 699
HpyAV CCTTC 7 cut(s) 143, 229, 349, 457, 577, 685, 713
HpyCH4IV ACGT 1 cut(s) 123
HpyCH4V TGCA 5 cut(s) 52, 280, 446, 508, 674
HpyF3I CTNAG 2 cut(s) 562, 588
HpySE526I ACGT 1 cut(s) 123
Hsp92II CATG 1 cut(s) 280
KroI GCCGGC 2 cut(s) 413, 641
KroNI GCCGGC 2 cut(s) 415, 643
Kzo9I GATC 6 cut(s) 135, 177, 282, 363, 510, 609
LmnI GCTCC 2 cut(s) 38, 498
Lsp1109I GCAGC 4 cut(s) 181, 205, 433, 661
LweI GCATC 1 cut(s) 39
MaeII ACGT 1 cut(s) 123
MalI GATC 6 cut(s) 137, 179, 284, 365, 512, 611
MboI GATC 6 cut(s) 135, 177, 282, 363, 510, 609
MboII GAAGA 2 cut(s) 76, 96
MflI RGATCY 5 cut(s) 135, 282, 363, 510, 609
MhlI GDGCHC 2 cut(s) 335, 563
MlsI TGGCCA 1 cut(s) 8
MluCI AATT 2 cut(s) 26, 54
MluNI TGGCCA 1 cut(s) 8
MlyI GAGTC 4 cut(s) 110, 248, 289, 704
Mox20I TGGCCA 1 cut(s) 8
MroNI GCCGGC 2 cut(s) 413, 641
MroXI GAANNNNTTC 1 cut(s) 153
MscI TGGCCA 1 cut(s) 8
MseI TTAA 1 cut(s) 126
Msp20I TGGCCA 1 cut(s) 8
MspI CCGG 5 cut(s) 75, 303, 414, 531, 642
MspR9I CCNGG 3 cut(s) 10, 140, 368
Mva1269I GAATGC 2 cut(s) 153, 381
MvaI CCWGG 3 cut(s) 10, 140, 368
NaeI GCCGGC 2 cut(s) 415, 643
NdeII GATC 6 cut(s) 135, 177, 282, 363, 510, 609
NgoMIV GCCGGC 2 cut(s) 413, 641
NlaIII CATG 1 cut(s) 280
NlaIV GGNNCC 2 cut(s) 494, 611
NspI RCATGY 1 cut(s) 280
PaeI GCATGC 1 cut(s) 280
PaeR7I CTCGAG 1 cut(s) 653
PctI GAATGC 2 cut(s) 153, 381
PdiI GCCGGC 2 cut(s) 415, 643
PdmI GAANNNNTTC 1 cut(s) 153
PfeI GAWTC 2 cut(s) 467, 592
PfoI TCCNGGA 2 cut(s) 138, 366
PkrI GCNGC 5 cut(s) 171, 195, 423, 437, 651
PleI GAGTC 4 cut(s) 109, 247, 289, 703
PpsI GAGTC 4 cut(s) 109, 247, 289, 703
Psp124BI GAGCTC 2 cut(s) 335, 563
Psp1406I AACGTT 1 cut(s) 123
Psp6I CCWGG 3 cut(s) 8, 138, 366
PspGI CCWGG 3 cut(s) 8, 138, 366
PspN4I GGNNCC 2 cut(s) 494, 611
PspXI VCTCGAGB 1 cut(s) 653
PstNI CAGNNNCTG 1 cut(s) 175
PsuI RGATCY 5 cut(s) 135, 282, 363, 510, 609
RsaI GTAC 2 cut(s) 18, 667
RsaNI GTAC 2 cut(s) 17, 666
SacI GAGCTC 2 cut(s) 335, 563
SaqAI TTAA 1 cut(s) 126
SatI GCNGC 5 cut(s) 170, 194, 422, 436, 650
Sau3AI GATC 6 cut(s) 135, 177, 282, 363, 510, 609
SchI GAGTC 4 cut(s) 110, 248, 289, 704
ScrFI CCNGG 3 cut(s) 10, 140, 368
SduI GDGCHC 2 cut(s) 335, 563
SfaNI GCATC 1 cut(s) 39
Sfr274I CTCGAG 1 cut(s) 653
SlaI CTCGAG 1 cut(s) 653
SmlI CTYRAG 5 cut(s) 92, 197, 320, 425, 653
SmoI CTYRAG 5 cut(s) 92, 197, 320, 425, 653
SphI GCATGC 1 cut(s) 280
Sse9I AATT 2 cut(s) 26, 54
SsiI CCGC 1 cut(s) 436
SstI GAGCTC 2 cut(s) 335, 563
StyD4I CCNGG 3 cut(s) 8, 138, 366
StyI CCWWGG 1 cut(s) 546
TaiI ACGT 1 cut(s) 126
TaqI TCGA 2 cut(s) 47, 654
TasI AATT 2 cut(s) 26, 54
TauI GCSGC 1 cut(s) 438
TfiI GAWTC 2 cut(s) 467, 592
Tru1I TTAA 1 cut(s) 126
Tru9I TTAA 1 cut(s) 126
TseI GCWGC 4 cut(s) 169, 193, 421, 649
TspGWI ACGGA 4 cut(s) 257, 485, 707, 713
XapI RAATTY 2 cut(s) 26, 54
XceI RCATGY 1 cut(s) 280
XcmI CCANNNNNNNNNTGG 1 cut(s) 478
XhoI CTCGAG 1 cut(s) 653
XmiI GTMKAC 1 cut(s) 698
XmnI GAANNNNTTC 1 cut(s) 153
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.