RLG00000022224

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0005964
Physical Location & Seq
Reverse (-)
81813131 .. 81813786
656 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000022224

Sequence Viewer

Length: 327 bp
ATGGCATCGCAAGATACAGGAAGACCTCTGCCGAAATTTGGAGAGTGGGATGTGAACAATCCAGCCTCGGCCGAAGGGTTTACAGTGATATTCAGCAAAGCTAGAGACCAGAAAATGAACAATGGACCTGGGAACTCGAAAAAGCATTCATTTAAGCCCCAAAACAACAGTGATGATGCCCCAAAGCAACAGCAGCAGCTTGGTGGCCATGAATTAAGATCAATGTATCTCCTTCGCCATTCCTTGTTCAACAACACCAACCCCCCCGGCCCTCTAATTTCCATGTTCCCCAATACTTCTTTAGTAATAGTCTACACATATATCTAA
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

109

Amino Acids

12.06

Weight (kDa)

9.4

Isoelectric Point (pI)

36.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 7 - 39 3.5e-18 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

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 312
AcoI YGGCCR 2 cut(s) 69, 205
AcsI RAATTY 1 cut(s) 35
AfiI CCNNNNNNNGG 1 cut(s) 38
AgsI TTSAA 1 cut(s) 250
AjnI CCWGG 1 cut(s) 127
AluBI AGCT 2 cut(s) 101, 199
AluI AGCT 2 cut(s) 101, 199
Alw26I GTCTC 1 cut(s) 99
AoxI GGCC 3 cut(s) 69, 205, 268
ApeKI GCWGC 2 cut(s) 193, 196
ApoI RAATTY 1 cut(s) 35
AspS9I GGNCC 2 cut(s) 125, 269
AsuC2I CCSGG 1 cut(s) 267
AvaII GGWCC 1 cut(s) 125
BalI TGGCCA 1 cut(s) 207
BbsI GAAGAC 1 cut(s) 28
BbvI GCAGC 2 cut(s) 205, 208
BciT130I CCWGG 1 cut(s) 129
BcnI CCSGG 1 cut(s) 267
BcoDI GTCTC 1 cut(s) 99
BfaI CTAG 1 cut(s) 102
BisI GCNGC 2 cut(s) 194, 197
BlsI GCNGC 2 cut(s) 195, 198
Bme1390I CCNGG 2 cut(s) 129, 267
Bme18I GGWCC 1 cut(s) 125
BmgT120I GGNCC 2 cut(s) 125, 269
BmrFI CCNGG 2 cut(s) 129, 267
BmsI GCATC 2 cut(s) 14, 166
BpiI GAAGAC 1 cut(s) 28
BpuMI CCSGG 1 cut(s) 267
BsaI GGTCTC 1 cut(s) 99
BsaJI CCNNGG 3 cut(s) 66, 128, 265
Bsc4I CCNNNNNNNGG 1 cut(s) 38
BseBI CCWGG 1 cut(s) 129
BseDI CCNNGG 3 cut(s) 66, 128, 265
BseGI GGATG 1 cut(s) 55
BseLI CCNNNNNNNGG 1 cut(s) 38
BseX3I CGGCCG 1 cut(s) 69
BseXI GCAGC 2 cut(s) 205, 208
Bsh1285I CGRYCG 1 cut(s) 72
BshFI GGCC 3 cut(s) 71, 207, 270
BsiEI CGRYCG 1 cut(s) 72
BsiSI CCGG 1 cut(s) 267
BslI CCNNNNNNNGG 1 cut(s) 38
BsmAI GTCTC 1 cut(s) 99
BsmI GAATGC 1 cut(s) 145
BsnI GGCC 3 cut(s) 71, 207, 270
Bso31I GGTCTC 1 cut(s) 99
Bsp143I GATC 1 cut(s) 218
BspANI GGCC 3 cut(s) 71, 207, 270
BspTNI GGTCTC 1 cut(s) 99
BssECI CCNNGG 3 cut(s) 66, 128, 265
BssMI GATC 1 cut(s) 218
Bst2UI CCWGG 1 cut(s) 129
Bst4CI ACNGT 2 cut(s) 85, 170
BstF5I GGATG 1 cut(s) 55
BstKTI GATC 1 cut(s) 221
BstMAI GTCTC 1 cut(s) 99
BstMBI GATC 1 cut(s) 218
BstMCI CGRYCG 1 cut(s) 72
BstMWI GCNNNNNNNGC 1 cut(s) 193
BstNI CCWGG 1 cut(s) 129
BstSCI CCNGG 2 cut(s) 127, 265
BstV1I GCAGC 2 cut(s) 205, 208
BstV2I GAAGAC 1 cut(s) 28
BstZI CGGCCG 1 cut(s) 69
BsuRI GGCC 3 cut(s) 71, 207, 270
BtsCI GGATG 1 cut(s) 55
BtsIMutI CAGTG 2 cut(s) 90, 175
Cfr13I GGNCC 2 cut(s) 125, 269
CviAII CATG 2 cut(s) 209, 283
CviJI RGCY 7 cut(s) 65, 71, 101, 157, 199, 207, 270
CviKI_1 RGCY 7 cut(s) 65, 71, 101, 157, 199, 207, 270
DpnI GATC 1 cut(s) 220
DpnII GATC 1 cut(s) 218
EaeI YGGCCR 2 cut(s) 69, 205
EagI CGGCCG 1 cut(s) 69
EclXI CGGCCG 1 cut(s) 69
Eco31I GGTCTC 1 cut(s) 99
Eco47I GGWCC 1 cut(s) 125
Eco52I CGGCCG 1 cut(s) 69
EcoRII CCWGG 1 cut(s) 127
FaeI CATG 2 cut(s) 212, 286
FaiI YATR 4 cut(s) 210, 284, 319, 321
FatI CATG 2 cut(s) 208, 282
FblI GTMKAC 1 cut(s) 312
Fnu4HI GCNGC 2 cut(s) 194, 197
FokI GGATG 1 cut(s) 62
Fsp4HI GCNGC 2 cut(s) 194, 197
FspBI CTAG 1 cut(s) 102
GluI GCNGC 2 cut(s) 194, 197
HaeIII GGCC 3 cut(s) 71, 207, 270
HapII CCGG 1 cut(s) 267
Hin1II CATG 2 cut(s) 212, 286
HpaII CCGG 1 cut(s) 267
Hpy166II GTNNAC 3 cut(s) 55, 81, 313
Hpy8I GTNNAC 3 cut(s) 55, 81, 313
HpyAV CCTTC 2 cut(s) 68, 242
HpyCH4III ACNGT 2 cut(s) 85, 170
HpyF10VI GCNNNNNNNGC 1 cut(s) 193
Hsp92II CATG 2 cut(s) 212, 286
Kzo9I GATC 1 cut(s) 218
LpnPI CCDG 6 cut(s) 3, 75, 114, 122, 141, 280
Lsp1109I GCAGC 2 cut(s) 205, 208
LweI GCATC 2 cut(s) 14, 166
MaeI CTAG 1 cut(s) 102
MalI GATC 1 cut(s) 220
MboI GATC 1 cut(s) 218
MboII GAAGA 1 cut(s) 33
MlsI TGGCCA 1 cut(s) 207
MluCI AATT 3 cut(s) 35, 212, 276
MluNI TGGCCA 1 cut(s) 207
MnlI CCTC 3 cut(s) 36, 76, 282
Mox20I TGGCCA 1 cut(s) 207
MscI TGGCCA 1 cut(s) 207
MseI TTAA 2 cut(s) 153, 215
Msp20I TGGCCA 1 cut(s) 207
MspI CCGG 1 cut(s) 267
MspR9I CCNGG 2 cut(s) 129, 267
Mva1269I GAATGC 1 cut(s) 145
MvaI CCWGG 1 cut(s) 129
MwoI GCNNNNNNNGC 1 cut(s) 193
NciI CCSGG 1 cut(s) 267
NdeII GATC 1 cut(s) 218
NlaIII CATG 2 cut(s) 212, 286
NmeAIII GCCGAG 1 cut(s) 47
PctI GAATGC 1 cut(s) 145
PkrI GCNGC 2 cut(s) 195, 198
Psp6I CCWGG 1 cut(s) 127
PspGI CCWGG 1 cut(s) 127
PspPI GGNCC 2 cut(s) 125, 269
SaqAI TTAA 2 cut(s) 153, 215
SatI GCNGC 2 cut(s) 194, 197
Sau3AI GATC 1 cut(s) 218
Sau96I GGNCC 2 cut(s) 125, 269
ScrFI CCNGG 2 cut(s) 129, 267
SetI ASST 4 cut(s) 28, 103, 130, 201
SfaNI GCATC 2 cut(s) 14, 166
SinI GGWCC 1 cut(s) 125
Sse9I AATT 3 cut(s) 35, 212, 276
SspMI CTAG 1 cut(s) 102
StyD4I CCNGG 2 cut(s) 127, 265
TaaI ACNGT 2 cut(s) 85, 170
TaqI TCGA 1 cut(s) 137
TasI AATT 3 cut(s) 35, 212, 276
Tru1I TTAA 2 cut(s) 153, 215
Tru9I TTAA 2 cut(s) 153, 215
TscAI CASTG 2 cut(s) 90, 175
TseI GCWGC 2 cut(s) 193, 196
TspDTI ATGAA 3 cut(s) 131, 138, 225
TspRI CASTG 2 cut(s) 90, 175
VpaK11BI GGWCC 1 cut(s) 125
XapI RAATTY 1 cut(s) 35
XmiI GTMKAC 1 cut(s) 312
XspI CTAG 1 cut(s) 102
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.