Rroxscaffold_3G00263830

RPM1-interacting protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0005964
Physical Location & Seq
Reverse (-)
57649703 .. 57651991
2289 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00263830.1

Sequence Viewer

Length: 315 bp
ATGGCTTCGGATAAAGGTCGGCCCTTACCAAAATTTGGTGAGTGGGATGTAAATAACCCAGCATCAGCTGAAGGATTTACTGTCATATTCAACAAGGCCCGGGATGATAAGAAGACCAACGCGTCTCATCCTAATATTGTGACCCCACGAAAAGGCGATAGCAGCGTTCGAAGAGAAGAAGTGGTTTTGCTGTGGTTGAATCCACACACTGCTTTGGAGCCTGGTGATAATGCAAGAGGAGCTACAAGGACACTGCTTTCTTGTGCCTGTGACACATGTGGAGCAATCAGCTCTTTCATTAAATTCAACAAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
AvrRpt-cleavage

Protein Analysis

104

Amino Acids

11.36

Weight (kDa)

8.93

Isoelectric Point (pI)

38.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 5 - 38 2.7e-19 Cleavage site for pathogenic type III effector avirulence factor Avr
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 121
AccB7I CCANNNNNTGG 1 cut(s) 35
AccII CGCG 1 cut(s) 122
AcsI RAATTY 2 cut(s) 32, 302
AcuI CTGAAG 1 cut(s) 90
AfiI CCNNNNNNNGG 2 cut(s) 35, 152
AflIII ACRYGT 2 cut(s) 120, 275
AgsI TTSAA 3 cut(s) 91, 199, 307
AjnI CCWGG 1 cut(s) 220
AluBI AGCT 3 cut(s) 68, 242, 291
AluI AGCT 3 cut(s) 68, 242, 291
Alw26I GTCTC 1 cut(s) 129
Ama87I CYCGRG 1 cut(s) 99
AoxI GGCC 2 cut(s) 20, 96
ApeKI GCWGC 1 cut(s) 162
ApoI RAATTY 2 cut(s) 32, 302
AspS9I GGNCC 2 cut(s) 21, 97
AsuC2I CCSGG 2 cut(s) 100, 101
AsuHPI GGTGA 2 cut(s) 50, 236
AsuII TTCGAA 1 cut(s) 169
AvaI CYCGRG 1 cut(s) 99
BbsI GAAGAC 1 cut(s) 119
BbvI GCAGC 1 cut(s) 174
BciT130I CCWGG 1 cut(s) 222
BcnI CCSGG 2 cut(s) 100, 101
BcoDI GTCTC 1 cut(s) 129
BisI GCNGC 1 cut(s) 163
BlsI GCNGC 1 cut(s) 164
Bme1390I CCNGG 3 cut(s) 100, 101, 222
BmeT110I CYCGRG 1 cut(s) 99
BmgT120I GGNCC 2 cut(s) 21, 97
BmiI GGNNCC 1 cut(s) 219
BmrFI CCNGG 3 cut(s) 100, 101, 222
BmsI GCATC 1 cut(s) 71
BpiI GAAGAC 1 cut(s) 119
Bpu14I TTCGAA 1 cut(s) 169
BpuMI CCSGG 2 cut(s) 100, 101
BsaJI CCNNGG 1 cut(s) 99
Bsc4I CCNNNNNNNGG 2 cut(s) 35, 152
BseBI CCWGG 1 cut(s) 222
BseDI CCNNGG 1 cut(s) 99
BseGI GGATG 3 cut(s) 52, 109, 127
BseLI CCNNNNNNNGG 2 cut(s) 35, 152
BseRI GAGGAG 1 cut(s) 252
BseXI GCAGC 1 cut(s) 174
BseYI CCCAGC 1 cut(s) 58
Bsh1236I CGCG 1 cut(s) 122
BshFI GGCC 2 cut(s) 22, 98
BsiHKCI CYCGRG 1 cut(s) 99
BsiSI CCGG 1 cut(s) 100
BslI CCNNNNNNNGG 2 cut(s) 35, 152
BsmAI GTCTC 1 cut(s) 129
BsmBI CGTCTC 1 cut(s) 129
BsnI GGCC 2 cut(s) 22, 98
BsoBI CYCGRG 1 cut(s) 99
Bsp119I TTCGAA 1 cut(s) 169
BspANI GGCC 2 cut(s) 22, 98
BspFNI CGCG 1 cut(s) 122
BspLI GGNNCC 1 cut(s) 219
BspT104I TTCGAA 1 cut(s) 169
BssECI CCNNGG 1 cut(s) 99
Bst2UI CCWGG 1 cut(s) 222
Bst4CI ACNGT 1 cut(s) 82
Bst6I CTCTTC 1 cut(s) 166
BstBI TTCGAA 1 cut(s) 169
BstF5I GGATG 3 cut(s) 52, 109, 127
BstFNI CGCG 1 cut(s) 122
BstMAI GTCTC 1 cut(s) 129
BstMWI GCNNNNNNNGC 2 cut(s) 162, 239
BstNI CCWGG 1 cut(s) 222
BstNSI RCATGY 1 cut(s) 279
BstSCI CCNGG 3 cut(s) 98, 99, 220
BstUI CGCG 1 cut(s) 122
BstV1I GCAGC 1 cut(s) 174
BstV2I GAAGAC 1 cut(s) 119
BsuRI GGCC 2 cut(s) 22, 98
BtsCI GGATG 3 cut(s) 52, 109, 127
BtsI GCAGTG 2 cut(s) 207, 251
BtsIMutI CAGTG 2 cut(s) 207, 251
Cfr13I GGNCC 2 cut(s) 21, 97
Cfr9I CCCGGG 1 cut(s) 99
CseI GACGC 1 cut(s) 111
CviAII CATG 1 cut(s) 276
CviJI RGCY 7 cut(s) 5, 22, 68, 98, 220, 242, 291
CviKI_1 RGCY 7 cut(s) 5, 22, 68, 98, 220, 242, 291
DrdI GACNNNNNNGTC 1 cut(s) 121
DseDI GACNNNNNNGTC 1 cut(s) 121
Eam1104I CTCTTC 1 cut(s) 166
EarI CTCTTC 1 cut(s) 166
Eco57I CTGAAG 1 cut(s) 90
Eco88I CYCGRG 1 cut(s) 99
EcoRII CCWGG 1 cut(s) 220
Esp3I CGTCTC 1 cut(s) 129
FaeI CATG 1 cut(s) 279
FaiI YATR 2 cut(s) 86, 277
FatI CATG 1 cut(s) 275
Fnu4HI GCNGC 1 cut(s) 163
FokI GGATG 3 cut(s) 59, 114, 116
Fsp4HI GCNGC 1 cut(s) 163
GluI GCNGC 1 cut(s) 163
GsaI CCCAGC 1 cut(s) 62
HaeIII GGCC 2 cut(s) 22, 98
HapII CCGG 1 cut(s) 100
HgaI GACGC 1 cut(s) 111
Hin1II CATG 1 cut(s) 279
HinfI GANTC 1 cut(s) 199
HpaII CCGG 1 cut(s) 100
HphI GGTGA 2 cut(s) 50, 236
Hpy188I TCNGA 1 cut(s) 10
HpyAV CCTTC 1 cut(s) 65
HpyCH4III ACNGT 1 cut(s) 82
HpyCH4V TGCA 1 cut(s) 233
HpyF10VI GCNNNNNNNGC 2 cut(s) 162, 239
Hsp92II CATG 1 cut(s) 279
LmnI GCTCC 3 cut(s) 217, 239, 281
LpnPI CCDG 5 cut(s) 72, 113, 207, 234, 280
Lsp1109I GCAGC 1 cut(s) 174
LweI GCATC 1 cut(s) 71
MaeIII GTNAC 2 cut(s) 139, 269
MboII GAAGA 3 cut(s) 124, 183, 188
MluCI AATT 2 cut(s) 32, 302
MluI ACGCGT 1 cut(s) 120
MnlI CCTC 1 cut(s) 230
MseI TTAA 1 cut(s) 300
MspA1I CMGCKG 1 cut(s) 68
MspI CCGG 1 cut(s) 100
MspR9I CCNGG 3 cut(s) 100, 101, 222
MvaI CCWGG 1 cut(s) 222
MvnI CGCG 1 cut(s) 122
MwoI GCNNNNNNNGC 2 cut(s) 162, 239
NciI CCSGG 2 cut(s) 100, 101
NlaIII CATG 1 cut(s) 279
NlaIV GGNNCC 1 cut(s) 219
NmuCI GTSAC 2 cut(s) 139, 269
NspI RCATGY 1 cut(s) 279
NspV TTCGAA 1 cut(s) 169
PciI ACATGT 1 cut(s) 275
PfeI GAWTC 1 cut(s) 199
PflMI CCANNNNNTGG 1 cut(s) 35
PkrI GCNGC 1 cut(s) 164
PscI ACATGT 1 cut(s) 275
Psp6I CCWGG 1 cut(s) 220
PspFI CCCAGC 1 cut(s) 58
PspGI CCWGG 1 cut(s) 220
PspN4I GGNNCC 1 cut(s) 219
PspPI GGNCC 2 cut(s) 21, 97
PvuII CAGCTG 1 cut(s) 68
SaqAI TTAA 1 cut(s) 300
SatI GCNGC 1 cut(s) 163
Sau96I GGNCC 2 cut(s) 21, 97
ScrFI CCNGG 3 cut(s) 100, 101, 222
SetI ASST 4 cut(s) 19, 70, 244, 293
SfaNI GCATC 1 cut(s) 71
SfuI TTCGAA 1 cut(s) 169
SmaI CCCGGG 1 cut(s) 101
Sse9I AATT 2 cut(s) 32, 302
SspI AATATT 1 cut(s) 136
StyD4I CCNGG 3 cut(s) 98, 99, 220
TaaI ACNGT 1 cut(s) 82
TaqI TCGA 1 cut(s) 169
TasI AATT 2 cut(s) 32, 302
TfiI GAWTC 1 cut(s) 199
Tru1I TTAA 1 cut(s) 300
Tru9I TTAA 1 cut(s) 300
TscAI CASTG 2 cut(s) 214, 258
TseFI GTSAC 2 cut(s) 139, 269
TseI GCWGC 1 cut(s) 162
Tsp45I GTSAC 2 cut(s) 139, 269
TspDTI ATGAA 1 cut(s) 286
TspMI CCCGGG 1 cut(s) 99
TspRI CASTG 2 cut(s) 214, 258
Van91I CCANNNNNTGG 1 cut(s) 35
XapI RAATTY 2 cut(s) 32, 302
XceI RCATGY 1 cut(s) 279
XmaI CCCGGG 1 cut(s) 99
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.