AT5G55850

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008210
Physical Location & Seq
Forward (+)
22603302 .. 22605300
1999 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G55850.3

Sequence Viewer

Length: 345 bp
ATGTCGGACAAAGGTCGTCCCTTGCCAAAATTTGGTGAATGGGATGTGAATGATCCAGCATCAGCAGAAGGTTTTACAGTGATATTCAACAAAGCTAGGGATGAGAAAAAGACCGGTGGCAAACCGGGATCACCCGGTAAATCCAGTGAGGGTCATGTTAAATCTGGAGGAGGAGATCCTAGTAAACCTCAGCCTGTAAAAAAAATGGCTCTGCTGCATGCAAGCTCCAGCTGTGGACTCTTGACAGACACAAAGATGGATTTGCTTGCTGCTAAAAAAAAAGTCACAGTGCTTACACATCTAAAAGCAATGGTTCTTTTTATGTTTTATTGTCGTCTTTCTTGA
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

114

Amino Acids

12.22

Weight (kDa)

9.66

Isoelectric Point (pI)

42.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 4 - 37 4.1e-20 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 32
AclWI GGATC 3 cut(s) 47, 136, 170
AcsI RAATTY 1 cut(s) 29
AfiI CCNNNNNNNGG 1 cut(s) 32
AgeI ACCGGT 1 cut(s) 113
AgsI TTSAA 1 cut(s) 88
AluBI AGCT 3 cut(s) 95, 225, 231
AluI AGCT 3 cut(s) 95, 225, 231
AlwI GGATC 3 cut(s) 47, 136, 170
ApeKI GCWGC 2 cut(s) 214, 269
ApoI RAATTY 1 cut(s) 29
AsiGI ACCGGT 1 cut(s) 113
AsuC2I CCSGG 2 cut(s) 126, 135
AsuHPI GGTGA 2 cut(s) 47, 123
BbvCI CCTCAGC 1 cut(s) 189
BbvI GCAGC 2 cut(s) 201, 256
BccI CCATC 1 cut(s) 250
BcnI CCSGG 2 cut(s) 126, 135
BfaI CTAG 2 cut(s) 96, 180
BisI GCNGC 2 cut(s) 215, 270
BlsI GCNGC 2 cut(s) 216, 271
Bme1390I CCNGG 2 cut(s) 126, 135
BmrFI CCNGG 2 cut(s) 126, 135
BmsI GCATC 1 cut(s) 68
BoxI GACNNNNGTC 1 cut(s) 12
BpmI CTGGAG 2 cut(s) 186, 211
Bpu10I CCTNAGC 1 cut(s) 189
BpuMI CCSGG 2 cut(s) 126, 135
BsaWI WCCGGW 1 cut(s) 113
Bsc4I CCNNNNNNNGG 1 cut(s) 32
Bse118I RCCGGY 1 cut(s) 113
Bse1I ACTGG 1 cut(s) 144
Bse3DI GCAATG 1 cut(s) 315
BseGI GGATG 2 cut(s) 49, 106
BseLI CCNNNNNNNGG 1 cut(s) 32
BseMI GCAATG 1 cut(s) 315
BseMII CTCAG 1 cut(s) 203
BseNI ACTGG 1 cut(s) 144
BseRI GAGGAG 2 cut(s) 183, 186
BseXI GCAGC 2 cut(s) 201, 256
BshTI ACCGGT 1 cut(s) 113
BsiSI CCGG 3 cut(s) 114, 125, 135
BslFI GGGAC 1 cut(s) 3
BslI CCNNNNNNNGG 1 cut(s) 32
BsmFI GGGAC 1 cut(s) 3
Bsp143I GATC 3 cut(s) 52, 128, 175
BspCNI CTCAG 1 cut(s) 202
BspPI GGATC 3 cut(s) 47, 136, 170
BsrDI GCAATG 1 cut(s) 315
BsrFI RCCGGY 1 cut(s) 113
BsrI ACTGG 1 cut(s) 144
BssAI RCCGGY 1 cut(s) 113
BssMI GATC 3 cut(s) 52, 128, 175
Bst4CI ACNGT 2 cut(s) 79, 289
BstC8I GCNNGC 3 cut(s) 219, 223, 267
BstDEI CTNAG 1 cut(s) 189
BstF5I GGATG 2 cut(s) 49, 106
BstKTI GATC 3 cut(s) 55, 131, 178
BstMBI GATC 3 cut(s) 52, 128, 175
BstNSI RCATGY 1 cut(s) 221
BstPAI GACNNNNGTC 1 cut(s) 12
BstSCI CCNGG 2 cut(s) 124, 133
BstV1I GCAGC 2 cut(s) 201, 256
BstX2I RGATCY 1 cut(s) 175
BstYI RGATCY 1 cut(s) 175
BtsCI GGATG 2 cut(s) 49, 106
BtsIMutI CAGTG 3 cut(s) 84, 151, 294
Cac8I GCNNGC 3 cut(s) 219, 223, 267
Cfr10I RCCGGY 1 cut(s) 113
CspAI ACCGGT 1 cut(s) 113
CviAII CATG 2 cut(s) 155, 218
CviJI RGCY 5 cut(s) 95, 193, 209, 225, 231
CviKI_1 RGCY 5 cut(s) 95, 193, 209, 225, 231
DdeI CTNAG 1 cut(s) 189
DpnI GATC 3 cut(s) 54, 130, 177
DpnII GATC 3 cut(s) 52, 128, 175
FaeI CATG 2 cut(s) 158, 221
FaiI YATR 3 cut(s) 156, 219, 323
FaqI GGGAC 1 cut(s) 3
FatI CATG 2 cut(s) 154, 217
Fnu4HI GCNGC 2 cut(s) 215, 270
FokI GGATG 2 cut(s) 56, 113
Fsp4HI GCNGC 2 cut(s) 215, 270
FspBI CTAG 2 cut(s) 96, 180
GluI GCNGC 2 cut(s) 215, 270
GsuI CTGGAG 2 cut(s) 186, 211
HapII CCGG 3 cut(s) 114, 125, 135
Hin1II CATG 2 cut(s) 158, 221
HinfI GANTC 1 cut(s) 237
HpaII CCGG 3 cut(s) 114, 125, 135
HphI GGTGA 2 cut(s) 47, 123
Hpy166II GTNNAC 2 cut(s) 185, 236
Hpy188I TCNGA 1 cut(s) 7
Hpy188III TCNNGA 3 cut(s) 165, 241, 342
Hpy8I GTNNAC 2 cut(s) 185, 236
HpyAV CCTTC 1 cut(s) 62
HpyCH4III ACNGT 2 cut(s) 79, 289
HpyCH4V TGCA 2 cut(s) 217, 221
HpyF3I CTNAG 1 cut(s) 189
Hsp92II CATG 2 cut(s) 158, 221
Kzo9I GATC 3 cut(s) 52, 128, 175
LmnI GCTCC 1 cut(s) 230
LpnPI CCDG 8 cut(s) 69, 127, 138, 148, 150, 157, 207, 241
Lsp1109I GCAGC 2 cut(s) 201, 256
LweI GCATC 1 cut(s) 68
MaeI CTAG 2 cut(s) 96, 180
MaeIII GTNAC 1 cut(s) 283
MalI GATC 3 cut(s) 54, 130, 177
MboI GATC 3 cut(s) 52, 128, 175
MflI RGATCY 1 cut(s) 175
MluCI AATT 1 cut(s) 29
MlyI GAGTC 1 cut(s) 231
MnlI CCTC 4 cut(s) 142, 161, 164, 198
MseI TTAA 1 cut(s) 159
MslI CAYNNNNRTG 1 cut(s) 254
MspA1I CMGCKG 1 cut(s) 231
MspI CCGG 3 cut(s) 114, 125, 135
MspR9I CCNGG 2 cut(s) 126, 135
NciI CCSGG 2 cut(s) 126, 135
NdeII GATC 3 cut(s) 52, 128, 175
NlaIII CATG 2 cut(s) 158, 221
NmuCI GTSAC 1 cut(s) 283
NspI RCATGY 1 cut(s) 221
PaeI GCATGC 1 cut(s) 221
PflMI CCANNNNNTGG 1 cut(s) 32
PinAI ACCGGT 1 cut(s) 113
PkrI GCNGC 2 cut(s) 216, 271
PleI GAGTC 1 cut(s) 231
PpsI GAGTC 1 cut(s) 231
PshAI GACNNNNGTC 1 cut(s) 12
PsuI RGATCY 1 cut(s) 175
PvuII CAGCTG 1 cut(s) 231
RseI CAYNNNNRTG 1 cut(s) 254
SaqAI TTAA 1 cut(s) 159
SatI GCNGC 2 cut(s) 215, 270
Sau3AI GATC 3 cut(s) 52, 128, 175
SchI GAGTC 1 cut(s) 231
ScrFI CCNGG 2 cut(s) 126, 135
SetI ASST 6 cut(s) 16, 73, 97, 190, 227, 233
SfaNI GCATC 1 cut(s) 68
SmiMI CAYNNNNRTG 1 cut(s) 254
SphI GCATGC 1 cut(s) 221
Sse9I AATT 1 cut(s) 29
SspMI CTAG 2 cut(s) 96, 180
StyD4I CCNGG 2 cut(s) 124, 133
TaaI ACNGT 2 cut(s) 79, 289
TasI AATT 1 cut(s) 29
Tru1I TTAA 1 cut(s) 159
Tru9I TTAA 1 cut(s) 159
TscAI CASTG 3 cut(s) 84, 151, 294
TseFI GTSAC 1 cut(s) 283
TseI GCWGC 2 cut(s) 214, 269
Tsp45I GTSAC 1 cut(s) 283
TspRI CASTG 3 cut(s) 84, 151, 294
Van91I CCANNNNNTGG 1 cut(s) 32
XapI RAATTY 1 cut(s) 29
XceI RCATGY 1 cut(s) 221
XspI CTAG 2 cut(s) 96, 180
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.