Rh2DG536200

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0005965
Physical Location & Seq
Reverse (-)
76619920 .. 76622917
2998 bp
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UTR
Exon/CDS
Intron
Rh2DG536200.1

Sequence Viewer

Length: 279 bp
ATGGCGGATAAGGGTGTACCACTGCCAAAGTTTGGTGAATGGGACGTCAATGATCCAGCATCAGCGGAGGGGTTCACAGTAATCTTCAACAAGGCTAGGACTGAGAAAAAGGCTGGTGGCAGACCTGAGTCACCATCAAAGGATGACTGCACATATAAGCATGGAGCAGTTCTCGGAAAGCCTCCCACTAACCATAATGCGTTTGAAACCTACAATGTTTTAAAAAATGGTTTTGCTGCTTGCGTGCGGAATCGTGAGGAAGCTCCCACCATGTCGTAG
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

92

Amino Acids

10.01

Weight (kDa)

7.78

Isoelectric Point (pI)

47.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 4 - 37 6.7e-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)
AatII GACGTC 1 cut(s) 48
AccB7I CCANNNNNTGG 1 cut(s) 32
AciI CCGC 3 cut(s) 5, 65, 247
AclWI GGATC 1 cut(s) 47
AcyI GRCGYC 1 cut(s) 45
AfaI GTAC 1 cut(s) 18
AfiI CCNNNNNNNGG 1 cut(s) 32
AgsI TTSAA 2 cut(s) 88, 206
AluBI AGCT 1 cut(s) 263
AluI AGCT 1 cut(s) 263
AlwI GGATC 1 cut(s) 47
ApeKI GCWGC 1 cut(s) 236
AsuHPI GGTGA 2 cut(s) 47, 123
BbvI GCAGC 1 cut(s) 223
BccI CCATC 1 cut(s) 142
BfaI CTAG 1 cut(s) 96
BisI GCNGC 1 cut(s) 237
BlsI GCNGC 1 cut(s) 238
BmsI GCATC 1 cut(s) 68
BoxI GACNNNNGTC 1 cut(s) 127
BplI GAGNNNNNCTC 2 cut(s) 156, 188
BsaHI GRCGYC 1 cut(s) 45
Bsc4I CCNNNNNNNGG 1 cut(s) 32
BseGI GGATG 1 cut(s) 148
BseLI CCNNNNNNNGG 1 cut(s) 32
BseMII CTCAG 2 cut(s) 93, 117
BseXI GCAGC 1 cut(s) 223
BsgI GTGCAG 1 cut(s) 133
BslFI GGGAC 1 cut(s) 56
BslI CCNNNNNNNGG 1 cut(s) 32
BsmFI GGGAC 1 cut(s) 56
Bsp143I GATC 1 cut(s) 52
BspACI CCGC 3 cut(s) 5, 65, 247
BspCNI CTCAG 2 cut(s) 94, 118
BspPI GGATC 1 cut(s) 47
BssMI GATC 1 cut(s) 52
BssNI GRCGYC 1 cut(s) 45
Bst4CI ACNGT 1 cut(s) 79
BstACI GRCGYC 1 cut(s) 45
BstC8I GCNNGC 2 cut(s) 241, 245
BstDEI CTNAG 2 cut(s) 102, 126
BstF5I GGATG 1 cut(s) 148
BstKTI GATC 1 cut(s) 55
BstMBI GATC 1 cut(s) 52
BstPAI GACNNNNGTC 1 cut(s) 127
BstV1I GCAGC 1 cut(s) 223
BtsCI GGATG 1 cut(s) 148
BtsI GCAGTG 1 cut(s) 20
BtsIMutI CAGTG 1 cut(s) 20
Cac8I GCNNGC 2 cut(s) 241, 245
Csp6I GTAC 1 cut(s) 17
CviAII CATG 2 cut(s) 161, 271
CviJI RGCY 4 cut(s) 95, 113, 181, 263
CviKI_1 RGCY 4 cut(s) 95, 113, 181, 263
CviQI GTAC 1 cut(s) 17
DdeI CTNAG 2 cut(s) 102, 126
DpnI GATC 1 cut(s) 54
DpnII GATC 1 cut(s) 52
DraI TTTAAA 1 cut(s) 222
EciI GGCGGA 1 cut(s) 20
FaeI CATG 2 cut(s) 164, 274
FaiI YATR 5 cut(s) 154, 156, 162, 195, 272
FaqI GGGAC 1 cut(s) 56
FatI CATG 2 cut(s) 160, 270
Fnu4HI GCNGC 1 cut(s) 237
FokI GGATG 1 cut(s) 155
Fsp4HI GCNGC 1 cut(s) 237
FspBI CTAG 1 cut(s) 96
GluI GCNGC 1 cut(s) 237
Hin1I GRCGYC 1 cut(s) 45
Hin1II CATG 2 cut(s) 164, 274
HinfI GANTC 2 cut(s) 128, 250
HphI GGTGA 2 cut(s) 47, 123
Hpy166II GTNNAC 2 cut(s) 17, 75
Hpy188I TCNGA 1 cut(s) 176
Hpy188III TCNNGA 1 cut(s) 254
Hpy8I GTNNAC 2 cut(s) 17, 75
HpyCH4III ACNGT 1 cut(s) 79
HpyCH4IV ACGT 1 cut(s) 45
HpyCH4V TGCA 1 cut(s) 150
HpyF3I CTNAG 2 cut(s) 102, 126
HpySE526I ACGT 1 cut(s) 45
Hsp92I GRCGYC 1 cut(s) 45
Hsp92II CATG 2 cut(s) 164, 274
Kzo9I GATC 1 cut(s) 52
LmnI GCTCC 2 cut(s) 164, 268
LpnPI CCDG 3 cut(s) 69, 99, 138
Lsp1109I GCAGC 1 cut(s) 223
LweI GCATC 1 cut(s) 68
MaeI CTAG 1 cut(s) 96
MaeII ACGT 1 cut(s) 45
MaeIII GTNAC 1 cut(s) 129
MalI GATC 1 cut(s) 54
MboI GATC 1 cut(s) 52
MboII GAAGA 1 cut(s) 76
MlyI GAGTC 1 cut(s) 137
MnlI CCTC 3 cut(s) 61, 192, 250
MseI TTAA 1 cut(s) 221
MspA1I CMGCKG 1 cut(s) 65
NdeII GATC 1 cut(s) 52
NlaIII CATG 2 cut(s) 164, 274
NmuCI GTSAC 1 cut(s) 129
PfeI GAWTC 1 cut(s) 250
PflMI CCANNNNNTGG 1 cut(s) 32
PkrI GCNGC 1 cut(s) 238
PleI GAGTC 1 cut(s) 136
PpsI GAGTC 1 cut(s) 136
PshAI GACNNNNGTC 1 cut(s) 127
RsaI GTAC 1 cut(s) 18
RsaNI GTAC 1 cut(s) 17
SaqAI TTAA 1 cut(s) 221
SatI GCNGC 1 cut(s) 237
Sau3AI GATC 1 cut(s) 52
SchI GAGTC 1 cut(s) 137
SetI ASST 4 cut(s) 48, 127, 212, 265
SfaNI GCATC 1 cut(s) 68
SsiI CCGC 3 cut(s) 5, 65, 247
SspMI CTAG 1 cut(s) 96
TaaI ACNGT 1 cut(s) 79
TaiI ACGT 1 cut(s) 48
TfiI GAWTC 1 cut(s) 250
Tru1I TTAA 1 cut(s) 221
Tru9I TTAA 1 cut(s) 221
TscAI CASTG 1 cut(s) 27
TseFI GTSAC 1 cut(s) 129
TseI GCWGC 1 cut(s) 236
Tsp45I GTSAC 1 cut(s) 129
TspRI CASTG 1 cut(s) 27
Van91I CCANNNNNTGG 1 cut(s) 32
XspI CTAG 1 cut(s) 96
ZraI GACGTC 1 cut(s) 46
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.