Rroxscaffold_1G00043160

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0011635
Physical Location & Seq
Forward (+)
61475105 .. 61477423
2319 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043160.1

Sequence Viewer

Length: 918 bp
ATGCAAATCTTTGTTAAGACTCTCACTGGGAAAACCATAACCTTGGAGGTTGAGAGTTCTGACACCATTGACAATGTGAAGGCAAAGATCCAAGACAAAGAGGGTATCCCACCAGACCAGCAGAGACTTATCTTTGCTGGAAAGCAACTTGAGGATGGCCGCACCTTGGCTGATTACAATATTCAAAAGGAGTCGACCCTTCATTTAGTGCTCCGTCTGCGTGGTGGCATGCAAATCTTTGTCAAAACCCTCACCGGAAAGACCATCACCTTGGAGGTCGAAAGTTCAGATACAATAGATAATGTCAAGGCAAAGATTCAGGATAAGGAGGGCATCCCTCCAGACCAGCAGAGGCTCATCTTTGCAGGGAAACAGTTAGAGGATGGTCGCACTCTTGCAGATTACAACATCCAGAAAGAATCAACTCTTCACTTGGTGTTGCGTCTCCGTGGTGGCATGCAAATCTTTGTTAAGACCCTCACCGGCAAAACCATCACTCTGGAAGTGGAAAGCTCTGACACGATTGATAATGTGAAAGCTAAAATTCAGGACAAAGAGGGTATTCCCCCAGACCAGCAGAGATTGATTTTTGCGGGTAAGCAGCTTGAGGATGGAAGGACACTTGCCGACTATAATATTCAGAAGGAGTCCACTCTGCACTTGGTGCTTCGTCTGCGTGGTGGTATGCAGATCTTTGTTAAAACTCTGACTGGGAAGACCATTACTTTGGAGGTAGAGAGTTCAGATACGATTGACAATGTAAAAACCAAGATTCAGGACAAGGAGGGCATTCCTCCGGACCAGCAGAGGCTTATATTTGCTGGAAAGCAGCTTGAGGATGGGAGGACCCTTGCTGACTATAACATCCAGAAGGAGTCCACCCTTCACCTTGTCCTCCGCCTCCGCGGTGGTTTCTGA
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

305

Amino Acids

34.22

Weight (kDa)

6.94

Isoelectric Point (pI)

29.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 5.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 7.4e-32 Ubiquitin family
Rad60-SLD PF11976 77 - 147 5.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 7.4e-32 Ubiquitin family
Rad60-SLD PF11976 153 - 223 5.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 155 - 226 7.4e-32 Ubiquitin family
Rad60-SLD PF11976 229 - 299 5.9e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 231 - 302 1.9e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 194
AccII CGCG 1 cut(s) 906
AccIII TCCGGA 1 cut(s) 796
AciI CCGC 5 cut(s) 160, 593, 898, 904, 906
AclWI GGATC 1 cut(s) 82
AcoI YGGCCR 1 cut(s) 157
AcsI RAATTY 1 cut(s) 543
AdeI CACNNNGTG 2 cut(s) 436, 664
AfiI CCNNNNNNNGG 1 cut(s) 166
AgsI TTSAA 1 cut(s) 185
AluBI AGCT 4 cut(s) 513, 539, 604, 832
AluI AGCT 4 cut(s) 513, 539, 604, 832
Alw21I GWGCWC 1 cut(s) 213
Alw26I GTCTC 2 cut(s) 118, 449
AlwI GGATC 1 cut(s) 82
Aor13HI TCCGGA 1 cut(s) 796
AoxI GGCC 1 cut(s) 157
ApeKI GCWGC 2 cut(s) 601, 829
ApoI RAATTY 1 cut(s) 543
ArsI GACNNNNNNTTYG 2 cut(s) 709, 741
AspS9I GGNCC 2 cut(s) 799, 846
AsuHPI GGTGA 4 cut(s) 244, 259, 472, 878
AvaII GGWCC 2 cut(s) 799, 846
BbsI GAAGAC 1 cut(s) 722
Bbv12I GWGCWC 1 cut(s) 213
BbvI GCAGC 2 cut(s) 613, 841
BccI CCATC 6 cut(s) 149, 272, 377, 500, 605, 833
BciVI GTATCC 1 cut(s) 116
BcoDI GTCTC 2 cut(s) 118, 449
BfuI GTATCC 1 cut(s) 116
BglII AGATCT 1 cut(s) 690
BisI GCNGC 3 cut(s) 160, 602, 830
BlsI GCNGC 3 cut(s) 161, 603, 831
Bme18I GGWCC 2 cut(s) 799, 846
BmgT120I GGNCC 2 cut(s) 799, 846
BmiI GGNNCC 1 cut(s) 848
BmrI ACTGGG 2 cut(s) 36, 720
BmsI GCATC 1 cut(s) 342
BmuI ACTGGG 2 cut(s) 36, 720
BpiI GAAGAC 1 cut(s) 722
BpmI CTGGAG 1 cut(s) 324
BpuEI CTTGAG 3 cut(s) 170, 626, 854
BsaJI CCNNGG 5 cut(s) 42, 165, 270, 448, 904
BsaWI WCCGGW 2 cut(s) 254, 796
Bsc4I CCNNNNNNNGG 1 cut(s) 166
Bse118I RCCGGY 1 cut(s) 482
Bse1I ACTGG 2 cut(s) 31, 715
BseAI TCCGGA 1 cut(s) 796
BseDI CCNNGG 5 cut(s) 42, 165, 270, 448, 904
BseGI GGATG 7 cut(s) 160, 333, 388, 408, 616, 844, 864
BseLI CCNNNNNNNGG 1 cut(s) 166
BseNI ACTGG 2 cut(s) 31, 715
BseXI GCAGC 2 cut(s) 613, 841
BsgI GTGCAG 1 cut(s) 641
Bsh1236I CGCG 1 cut(s) 906
BshFI GGCC 1 cut(s) 159
BsiHKAI GWGCWC 1 cut(s) 213
BsiSI CCGG 3 cut(s) 255, 483, 797
BslI CCNNNNNNNGG 1 cut(s) 166
BsmAI GTCTC 2 cut(s) 118, 449
BsmBI CGTCTC 1 cut(s) 449
BsmI GAATGC 1 cut(s) 789
BsnI GGCC 1 cut(s) 159
Bsp1286I GDGCHC 1 cut(s) 213
Bsp13I TCCGGA 1 cut(s) 796
Bsp143I GATC 2 cut(s) 87, 690
BspACI CCGC 5 cut(s) 160, 593, 898, 904, 906
BspANI GGCC 1 cut(s) 159
BspEI TCCGGA 1 cut(s) 796
BspFNI CGCG 1 cut(s) 906
BspLI GGNNCC 1 cut(s) 848
BspPI GGATC 1 cut(s) 82
BsrFI RCCGGY 1 cut(s) 482
BsrI ACTGG 2 cut(s) 31, 715
BssAI RCCGGY 1 cut(s) 482
BssECI CCNNGG 5 cut(s) 42, 165, 270, 448, 904
BssMI GATC 2 cut(s) 87, 690
BssT1I CCWWGG 3 cut(s) 42, 165, 270
Bst4CI ACNGT 1 cut(s) 375
Bst6I CTCTTC 1 cut(s) 432
BstAPI GCANNNNNTGC 1 cut(s) 664
BstC8I GCNNGC 2 cut(s) 230, 458
BstDSI CCRYGG 2 cut(s) 448, 904
BstF5I GGATG 7 cut(s) 160, 333, 388, 408, 616, 844, 864
BstFNI CGCG 1 cut(s) 906
BstKTI GATC 2 cut(s) 90, 693
BstMAI GTCTC 2 cut(s) 118, 449
BstMBI GATC 2 cut(s) 87, 690
BstMWI GCNNNNNNNGC 3 cut(s) 217, 664, 673
BstNSI RCATGY 2 cut(s) 232, 460
BstUI CGCG 1 cut(s) 906
BstV1I GCAGC 2 cut(s) 613, 841
BstV2I GAAGAC 1 cut(s) 722
BstX2I RGATCY 2 cut(s) 87, 690
BstXI CCANNNNNNTGG 4 cut(s) 43, 271, 499, 727
BstYI RGATCY 2 cut(s) 87, 690
BsuI GTATCC 1 cut(s) 116
BsuRI GGCC 1 cut(s) 159
BtgI CCRYGG 2 cut(s) 448, 904
BtsCI GGATG 7 cut(s) 160, 333, 388, 408, 616, 844, 864
BtsIMutI CAGTG 1 cut(s) 24
Cac8I GCNNGC 2 cut(s) 230, 458
Cfr10I RCCGGY 1 cut(s) 482
Cfr13I GGNCC 2 cut(s) 799, 846
Cfr42I CCGCGG 1 cut(s) 907
CseI GACGC 1 cut(s) 431
CviAII CATG 2 cut(s) 229, 457
CviJI RGCY 8 cut(s) 159, 170, 355, 513, 539, 604, 811, 832
CviKI_1 RGCY 8 cut(s) 159, 170, 355, 513, 539, 604, 811, 832
DpnI GATC 2 cut(s) 89, 692
DpnII GATC 2 cut(s) 87, 690
DraIII CACNNNGTG 2 cut(s) 436, 664
EaeI YGGCCR 1 cut(s) 157
Eam1104I CTCTTC 1 cut(s) 432
EarI CTCTTC 1 cut(s) 432
EciI GGCGGA 1 cut(s) 887
Eco130I CCWWGG 3 cut(s) 42, 165, 270
Eco47I GGWCC 2 cut(s) 799, 846
EcoO109I RGGNCCY 1 cut(s) 846
EcoT14I CCWWGG 3 cut(s) 42, 165, 270
ErhI CCWWGG 3 cut(s) 42, 165, 270
Esp3I CGTCTC 1 cut(s) 449
FaeI CATG 2 cut(s) 232, 460
FaiI YATR 7 cut(s) 38, 230, 458, 633, 686, 815, 861
FatI CATG 2 cut(s) 228, 456
FauI CCCGC 1 cut(s) 586
FblI GTMKAC 1 cut(s) 194
Fnu4HI GCNGC 3 cut(s) 160, 602, 830
FokI GGATG 7 cut(s) 167, 320, 395, 395, 623, 851, 851
Fsp4HI GCNGC 3 cut(s) 160, 602, 830
GluI GCNGC 3 cut(s) 160, 602, 830
GsuI CTGGAG 1 cut(s) 324
HaeIII GGCC 1 cut(s) 159
HapII CCGG 3 cut(s) 255, 483, 797
HgaI GACGC 1 cut(s) 431
Hin1II CATG 2 cut(s) 232, 460
HincII GTYRAC 1 cut(s) 195
HindII GTYRAC 1 cut(s) 195
HinfI GANTC 7 cut(s) 19, 191, 316, 419, 647, 772, 875
HpaII CCGG 3 cut(s) 255, 483, 797
HphI GGTGA 4 cut(s) 244, 259, 472, 878
Hpy166II GTNNAC 3 cut(s) 195, 651, 879
Hpy188I TCNGA 7 cut(s) 61, 289, 517, 642, 708, 745, 917
Hpy188III TCNNGA 8 cut(s) 320, 341, 412, 500, 548, 776, 797, 868
Hpy8I GTNNAC 3 cut(s) 195, 651, 879
HpyAV CCTTC 6 cut(s) 73, 209, 609, 637, 865, 893
HpyCH4III ACNGT 1 cut(s) 375
HpyCH4V TGCA 7 cut(s) 4, 232, 365, 398, 460, 658, 688
HpyF10VI GCNNNNNNNGC 3 cut(s) 217, 664, 673
Hsp92II CATG 2 cut(s) 232, 460
Kpn2I TCCGGA 1 cut(s) 796
KspI CCGCGG 1 cut(s) 907
Kzo9I GATC 2 cut(s) 87, 690
LmnI GCTCC 1 cut(s) 216
Lsp1109I GCAGC 2 cut(s) 613, 841
LweI GCATC 1 cut(s) 342
MalI GATC 2 cut(s) 89, 692
MboI GATC 2 cut(s) 87, 690
MboII GAAGA 2 cut(s) 419, 727
MflI RGATCY 2 cut(s) 87, 690
MhlI GDGCHC 1 cut(s) 213
MluCI AATT 1 cut(s) 543
MlyI GAGTC 4 cut(s) 13, 200, 656, 884
MroI TCCGGA 1 cut(s) 796
MseI TTAA 3 cut(s) 15, 471, 699
MspA1I CMGCKG 1 cut(s) 906
MspI CCGG 3 cut(s) 255, 483, 797
Mva1269I GAATGC 1 cut(s) 789
MvnI CGCG 1 cut(s) 906
MwoI GCNNNNNNNGC 3 cut(s) 217, 664, 673
NdeII GATC 2 cut(s) 87, 690
NlaIII CATG 2 cut(s) 232, 460
NlaIV GGNNCC 1 cut(s) 848
NspI RCATGY 2 cut(s) 232, 460
PaeI GCATGC 2 cut(s) 232, 460
PctI GAATGC 1 cut(s) 789
PfeI GAWTC 3 cut(s) 316, 419, 772
PkrI GCNGC 3 cut(s) 161, 603, 831
PleI GAGTC 4 cut(s) 13, 199, 655, 883
PpsI GAGTC 4 cut(s) 13, 199, 655, 883
PpuMI RGGWCCY 1 cut(s) 846
Psp5II RGGWCCY 1 cut(s) 846
PspN4I GGNNCC 1 cut(s) 848
PspPI GGNCC 2 cut(s) 799, 846
PspPPI RGGWCCY 1 cut(s) 846
PsuI RGATCY 2 cut(s) 87, 690
SacII CCGCGG 1 cut(s) 907
SalI GTCGAC 1 cut(s) 193
SaqAI TTAA 3 cut(s) 15, 471, 699
SatI GCNGC 3 cut(s) 160, 602, 830
Sau3AI GATC 2 cut(s) 87, 690
Sau96I GGNCC 2 cut(s) 799, 846
SchI GAGTC 4 cut(s) 13, 200, 656, 884
SduI GDGCHC 1 cut(s) 213
SfaNI GCATC 1 cut(s) 342
Sfr303I CCGCGG 1 cut(s) 907
SgrBI CCGCGG 1 cut(s) 907
SinI GGWCC 2 cut(s) 799, 846
SmlI CTYRAG 3 cut(s) 149, 605, 833
SmoI CTYRAG 3 cut(s) 149, 605, 833
SphI GCATGC 2 cut(s) 232, 460
Sse9I AATT 1 cut(s) 543
SsiI CCGC 5 cut(s) 160, 593, 898, 904, 906
SspI AATATT 2 cut(s) 181, 637
StyI CCWWGG 3 cut(s) 42, 165, 270
TaaI ACNGT 1 cut(s) 375
TaqI TCGA 2 cut(s) 194, 279
TasI AATT 1 cut(s) 543
TauI GCSGC 1 cut(s) 162
TfiI GAWTC 3 cut(s) 316, 419, 772
Tru1I TTAA 3 cut(s) 15, 471, 699
Tru9I TTAA 3 cut(s) 15, 471, 699
TscAI CASTG 1 cut(s) 31
TseI GCWGC 2 cut(s) 601, 829
TspDTI ATGAA 1 cut(s) 191
TspGWI ACGGA 2 cut(s) 203, 437
TspRI CASTG 1 cut(s) 31
VpaK11BI GGWCC 2 cut(s) 799, 846
XapI RAATTY 1 cut(s) 543
XceI RCATGY 2 cut(s) 232, 460
XcmI CCANNNNNNNNNTGG 1 cut(s) 658
XmiI GTMKAC 1 cut(s) 194
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.