Rroxscaffold_1G00043300

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0015784
Physical Location & Seq
Forward (+)
61737497 .. 61739459
1963 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043300.1

Sequence Viewer

Length: 690 bp
ATGCAAATCTTCGTGAAGACCCTTACTGGGAAGACAATCACCTTGGAGGTGGAAAGCTCTGATACAATTGACAATGTCAAGGCAAAGATCCAGGACAAGGAGGGTATTCCCCCTGATCAGCAGAGACTCATCTTTGCAGGTAAACAGTTGGAAGACGGAAGAACTCTTGCAGACTATAACATTCAAAAAGAGTCGACCTTGCACTTGGTTCTCCGGCTGCGTGGTGGAATGCAAATTTTTGTGAAGACTTTGACAGGGAAAACCATTACTTTGGAAGTGGAAAGCTCAGACACAATTGATAATGTCAAGGCGAAGATTCAGGACAAAGAAGGCATTCCCCCAGACCAGCAGAGGCTCATCTTTGCAGGAAAGCAGCTTGAAGATGGTAGGACACTGGCAGACTACAACATCCAGAAGGAGTCGACTCTGCATTTGGTGCTCCGTCTACGTGGTGGGATGCAGATTTTTGTGAAGACCCTCACTGGAAAGACCATAACCTTGGAGGTAGAGAGTTCTGATACAATTGATAATGTGAAAGCAAAGATTCAGGACAAGGAGGGCATTCCTCCGGACCAGCAGAGGCTCATATTTGCTGGTAAGCAGCTTGAAGATGGGAGGACTCTAGCGGATTACAACATCCAGAAGGAGTCGACTCTTCACCTTGTCCTGCGCCTCCGTGGTGGTTTCTGA
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

229

Amino Acids

25.69

Weight (kDa)

6.86

Isoelectric Point (pI)

29.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 3.4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 4.3e-32 Ubiquitin family
Rad60-SLD PF11976 77 - 147 3.4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 4.3e-32 Ubiquitin family
Rad60-SLD PF11976 153 - 223 3.4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 155 - 226 4.3e-32 Ubiquitin family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 128
AccI GTMKAC 4 cut(s) 194, 422, 445, 650
AccIII TCCGGA 1 cut(s) 568
AciI CCGC 1 cut(s) 626
AclWI GGATC 1 cut(s) 82
AcsI RAATTY 1 cut(s) 234
AfiI CCNNNNNNNGG 2 cut(s) 27, 97
AgsI TTSAA 3 cut(s) 185, 380, 608
AjnI CCWGG 1 cut(s) 90
AluBI AGCT 4 cut(s) 57, 285, 376, 604
AluI AGCT 4 cut(s) 57, 285, 376, 604
Alw21I GWGCWC 1 cut(s) 441
Alw26I GTCTC 1 cut(s) 118
AlwI GGATC 1 cut(s) 82
Aor13HI TCCGGA 1 cut(s) 568
ApeKI GCWGC 3 cut(s) 217, 373, 601
ApoI RAATTY 1 cut(s) 234
ArsI GACNNNNNNTTYG 2 cut(s) 415, 447
Asp700I GAANNNNTTC 1 cut(s) 333
AspLEI GCGC 1 cut(s) 672
AspS9I GGNCC 1 cut(s) 571
AsuHPI GGTGA 2 cut(s) 31, 650
AvaII GGWCC 1 cut(s) 571
BbsI GAAGAC 5 cut(s) 23, 38, 159, 251, 479
Bbv12I GWGCWC 1 cut(s) 441
BbvI GCAGC 3 cut(s) 204, 385, 613
BccI CCATC 2 cut(s) 377, 605
BciT130I CCWGG 1 cut(s) 92
BclI TGATCA 1 cut(s) 115
BcoDI GTCTC 1 cut(s) 118
BfaI CTAG 1 cut(s) 623
BfuAI ACCTGC 1 cut(s) 128
BisI GCNGC 3 cut(s) 218, 374, 602
BlsI GCNGC 3 cut(s) 219, 375, 603
Bme1390I CCNGG 1 cut(s) 92
Bme18I GGWCC 1 cut(s) 571
BmgT120I GGNCC 1 cut(s) 571
BmrFI CCNGG 1 cut(s) 92
BmrI ACTGGG 1 cut(s) 36
BmsI GCATC 1 cut(s) 447
BmuI ACTGGG 1 cut(s) 36
BpiI GAAGAC 5 cut(s) 23, 38, 159, 251, 479
BsaAI YACGTR 1 cut(s) 449
BsaJI CCNNGG 3 cut(s) 42, 498, 676
BsaWI WCCGGW 1 cut(s) 568
Bsc4I CCNNNNNNNGG 2 cut(s) 27, 97
Bse1I ACTGG 3 cut(s) 31, 399, 487
BseAI TCCGGA 1 cut(s) 568
BseBI CCWGG 1 cut(s) 92
BseDI CCNNGG 3 cut(s) 42, 498, 676
BseGI GGATG 3 cut(s) 408, 462, 636
BseLI CCNNNNNNNGG 2 cut(s) 27, 97
BseMII CTCAG 1 cut(s) 300
BseNI ACTGG 3 cut(s) 31, 399, 487
BseXI GCAGC 3 cut(s) 204, 385, 613
BsiHKAI GWGCWC 1 cut(s) 441
BsiSI CCGG 2 cut(s) 214, 569
BslI CCNNNNNNNGG 2 cut(s) 27, 97
BsmAI GTCTC 1 cut(s) 118
BsmI GAATGC 3 cut(s) 234, 333, 561
Bsp1286I GDGCHC 1 cut(s) 441
Bsp13I TCCGGA 1 cut(s) 568
Bsp143I GATC 2 cut(s) 87, 115
BspACI CCGC 1 cut(s) 626
BspCNI CTCAG 1 cut(s) 299
BspEI TCCGGA 1 cut(s) 568
BspMI ACCTGC 1 cut(s) 128
BspPI GGATC 1 cut(s) 82
BsrI ACTGG 3 cut(s) 31, 399, 487
BssECI CCNNGG 3 cut(s) 42, 498, 676
BssMI GATC 2 cut(s) 87, 115
BssT1I CCWWGG 2 cut(s) 42, 498
Bst2UI CCWGG 1 cut(s) 92
Bst4CI ACNGT 1 cut(s) 147
Bst6I CTCTTC 1 cut(s) 660
BstAPI GCANNNNNTGC 1 cut(s) 436
BstBAI YACGTR 1 cut(s) 449
BstDEI CTNAG 1 cut(s) 286
BstDSI CCRYGG 1 cut(s) 676
BstF5I GGATG 3 cut(s) 408, 462, 636
BstHHI GCGC 1 cut(s) 672
BstKTI GATC 2 cut(s) 90, 118
BstMAI GTCTC 1 cut(s) 118
BstMBI GATC 2 cut(s) 87, 115
BstMWI GCNNNNNNNGC 1 cut(s) 436
BstNI CCWGG 1 cut(s) 92
BstSCI CCNGG 1 cut(s) 90
BstV1I GCAGC 3 cut(s) 204, 385, 613
BstV2I GAAGAC 5 cut(s) 23, 38, 159, 251, 479
BstX2I RGATCY 1 cut(s) 87
BstXI CCANNNNNNTGG 2 cut(s) 271, 499
BstYI RGATCY 1 cut(s) 87
BtgI CCRYGG 1 cut(s) 676
BtsCI GGATG 3 cut(s) 408, 462, 636
BtsIMutI CAGTG 2 cut(s) 392, 480
BveI ACCTGC 1 cut(s) 128
CfoI GCGC 1 cut(s) 672
Cfr13I GGNCC 1 cut(s) 571
CviJI RGCY 7 cut(s) 57, 217, 285, 355, 376, 583, 604
CviKI_1 RGCY 7 cut(s) 57, 217, 285, 355, 376, 583, 604
DdeI CTNAG 1 cut(s) 286
DpnI GATC 2 cut(s) 89, 117
DpnII GATC 2 cut(s) 87, 115
Eam1104I CTCTTC 1 cut(s) 660
EarI CTCTTC 1 cut(s) 660
Eco130I CCWWGG 2 cut(s) 42, 498
Eco47I GGWCC 1 cut(s) 571
EcoRII CCWGG 1 cut(s) 90
EcoT14I CCWWGG 2 cut(s) 42, 498
ErhI CCWWGG 2 cut(s) 42, 498
FaiI YATR 3 cut(s) 177, 494, 587
FbaI TGATCA 1 cut(s) 115
FblI GTMKAC 4 cut(s) 194, 422, 445, 650
Fnu4HI GCNGC 3 cut(s) 218, 374, 602
FokI GGATG 3 cut(s) 395, 469, 623
Fsp4HI GCNGC 3 cut(s) 218, 374, 602
FspBI CTAG 1 cut(s) 623
GlaI GCGC 1 cut(s) 671
GluI GCNGC 3 cut(s) 218, 374, 602
HapII CCGG 2 cut(s) 214, 569
HhaI GCGC 1 cut(s) 672
Hin6I GCGC 1 cut(s) 670
HinP1I GCGC 1 cut(s) 670
HincII GTYRAC 3 cut(s) 195, 423, 651
HindII GTYRAC 3 cut(s) 195, 423, 651
HinfI GANTC 9 cut(s) 126, 191, 316, 419, 424, 544, 619, 647, 652
HpaII CCGG 2 cut(s) 214, 569
HphI GGTGA 2 cut(s) 31, 650
Hpy166II GTNNAC 5 cut(s) 143, 195, 423, 446, 651
Hpy188I TCNGA 4 cut(s) 61, 289, 517, 689
Hpy188III TCNNGA 6 cut(s) 13, 320, 412, 548, 569, 640
Hpy8I GTNNAC 5 cut(s) 143, 195, 423, 446, 651
HpyAV CCTTC 3 cut(s) 323, 409, 637
HpyCH4III ACNGT 1 cut(s) 147
HpyCH4IV ACGT 1 cut(s) 448
HpyCH4V TGCA 8 cut(s) 4, 137, 170, 202, 232, 365, 430, 460
HpyF10VI GCNNNNNNNGC 1 cut(s) 436
HpyF3I CTNAG 1 cut(s) 286
HpySE526I ACGT 1 cut(s) 448
HspAI GCGC 1 cut(s) 670
Kpn2I TCCGGA 1 cut(s) 568
Ksp22I TGATCA 1 cut(s) 115
Kzo9I GATC 2 cut(s) 87, 115
LmnI GCTCC 1 cut(s) 444
Lsp1109I GCAGC 3 cut(s) 204, 385, 613
LweI GCATC 1 cut(s) 447
MaeI CTAG 1 cut(s) 623
MaeII ACGT 1 cut(s) 448
MalI GATC 2 cut(s) 89, 117
MboI GATC 2 cut(s) 87, 115
MfeI CAATTG 3 cut(s) 66, 294, 522
MflI RGATCY 1 cut(s) 87
MhlI GDGCHC 1 cut(s) 441
MluCI AATT 4 cut(s) 66, 234, 294, 522
MlyI GAGTC 7 cut(s) 120, 200, 418, 428, 613, 646, 656
MmeI TCCRAC 1 cut(s) 129
MroI TCCGGA 1 cut(s) 568
MroXI GAANNNNTTC 1 cut(s) 333
MspI CCGG 2 cut(s) 214, 569
MspR9I CCNGG 1 cut(s) 92
MunI CAATTG 3 cut(s) 66, 294, 522
Mva1269I GAATGC 3 cut(s) 234, 333, 561
MvaI CCWGG 1 cut(s) 92
MwoI GCNNNNNNNGC 1 cut(s) 436
NdeII GATC 2 cut(s) 87, 115
PctI GAATGC 3 cut(s) 234, 333, 561
PdmI GAANNNNTTC 1 cut(s) 333
PfeI GAWTC 2 cut(s) 316, 544
PflFI GACNNNGTC 1 cut(s) 74
PfoI TCCNGGA 1 cut(s) 90
PkrI GCNGC 3 cut(s) 219, 375, 603
PleI GAGTC 7 cut(s) 120, 199, 418, 427, 613, 646, 655
PpsI GAGTC 7 cut(s) 120, 199, 418, 427, 613, 646, 655
Ppu21I YACGTR 1 cut(s) 449
Psp6I CCWGG 1 cut(s) 90
PspGI CCWGG 1 cut(s) 90
PspPI GGNCC 1 cut(s) 571
PsuI RGATCY 1 cut(s) 87
PsyI GACNNNGTC 1 cut(s) 74
SalI GTCGAC 3 cut(s) 193, 421, 649
SatI GCNGC 3 cut(s) 218, 374, 602
Sau3AI GATC 2 cut(s) 87, 115
Sau96I GGNCC 1 cut(s) 571
SchI GAGTC 7 cut(s) 120, 200, 418, 428, 613, 646, 656
ScrFI CCNGG 1 cut(s) 92
SduI GDGCHC 1 cut(s) 441
SfaNI GCATC 1 cut(s) 447
SinI GGWCC 1 cut(s) 571
Sse9I AATT 4 cut(s) 66, 234, 294, 522
SsiI CCGC 1 cut(s) 626
SspMI CTAG 1 cut(s) 623
StyD4I CCNGG 1 cut(s) 90
StyI CCWWGG 2 cut(s) 42, 498
TaaI ACNGT 1 cut(s) 147
TaiI ACGT 1 cut(s) 451
TaqI TCGA 3 cut(s) 194, 422, 650
TasI AATT 4 cut(s) 66, 234, 294, 522
TfiI GAWTC 2 cut(s) 316, 544
TscAI CASTG 2 cut(s) 399, 487
TseI GCWGC 3 cut(s) 217, 373, 601
TspGWI ACGGA 3 cut(s) 171, 431, 665
TspRI CASTG 2 cut(s) 399, 487
Tth111I GACNNNGTC 1 cut(s) 74
VpaK11BI GGWCC 1 cut(s) 571
XapI RAATTY 1 cut(s) 234
XmiI GTMKAC 4 cut(s) 194, 422, 445, 650
XmnI GAANNNNTTC 1 cut(s) 333
XspI CTAG 1 cut(s) 623
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.