RLG00000011755

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0005965
Physical Location & Seq
Forward (+)
12385326 .. 12387652
2327 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000011755

Sequence Viewer

Length: 780 bp
ATGCCAAAGTTCGGTGAATGGGACGTCAGTGATCCAGCATCAGCAGAGGGATTCACAGTAATCTTCAACAAGGCAAGGACTAAGGAAAAGACTGGTGGCAGATCTGGGTCACCAGCAGAGGATGACTGCACATATAACCATGGAGCAGTTCTCGGAAAGCCTACCACTCCAGTATCTGTTCTTCAGTTTCTCTTGATGGATGCTATAAATGCACAAATGAGCATAGTGATACTTCACTTTGCATCAAGTTTAACGCAGCAGAAGTCGATCGACTGGGCTGAAGTTTCACCACTAAACTACGGCACGGAAGGACTGACAGGACCACTTTTTCTGCAATTCTCCTTGAAGAGGAATAAGTCGAGCAATTCTTCCTCCTGCAATACTCTCCAAATGAACTCCACACCATCTGCATTCGTGGAAATCTTAACTGGGGTAGGTCTATTTATTATATTCATCCTTGTATGCATGGTTCCTGTATTTTTTGCGGTTGTCGATAAAAAATCACGGAGGAGGCATCTCGACCAGATGCATTATCTTCATCATGATCACGTCCGTGATTTTTTATCTACAACCGCAGAAACTGCAAGAACCATAAATACGAGGATGAAGATAATAAATACACCTACCCGTGTTAAGATTTCCAAGAATGTAGATGGTGTGGAGCTCATTTGTGGAGTAATGCAGGAGGAAGAATTGCTTGACTTATTCCTCTTCAAAAGGAGAATTGGTTTCAATATACAGGAGGAAGAGGGAAAGAAGAACATTGATTTTGGTAACTAA
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

260

Amino Acids

28.94

Weight (kDa)

7.05

Isoelectric Point (pI)

53.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 2 - 28 6.6e-15 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 27
AciI CCGC 2 cut(s) 485, 573
AclWI GGATC 1 cut(s) 26
AcuI CTGAAG 2 cut(s) 167, 300
AcyI GRCGYC 1 cut(s) 24
AfiI CCNNNNNNNGG 2 cut(s) 11, 348
AgsI TTSAA 4 cut(s) 67, 346, 715, 733
AjiI CACGTC 1 cut(s) 550
AleI CACNNNNGTG 1 cut(s) 552
AluBI AGCT 1 cut(s) 664
AluI AGCT 1 cut(s) 664
Alw21I GWGCWC 1 cut(s) 666
AlwI GGATC 1 cut(s) 26
AlwNI CAGNNNCTG 2 cut(s) 176, 581
ApeKI GCWGC 1 cut(s) 256
AspS9I GGNCC 1 cut(s) 320
AsuHPI GGTGA 3 cut(s) 26, 102, 279
AvaII GGWCC 1 cut(s) 320
BaeI ACNNNNGTAYC 2 cut(s) 156, 189
BanII GRGCYC 1 cut(s) 666
BarI GAAGNNNNNNTAC 2 cut(s) 165, 197
Bbv12I GWGCWC 1 cut(s) 666
BbvI GCAGC 1 cut(s) 268
BccI CCATC 3 cut(s) 190, 412, 647
BceAI ACGGC 1 cut(s) 316
BclI TGATCA 1 cut(s) 544
BglII AGATCT 1 cut(s) 101
BisI GCNGC 1 cut(s) 257
BlsI GCNGC 1 cut(s) 258
Bme18I GGWCC 1 cut(s) 320
BmgBI CACGTC 1 cut(s) 550
BmgT120I GGNCC 1 cut(s) 320
BmiI GGNNCC 1 cut(s) 471
BmrI ACTGGG 2 cut(s) 283, 438
BmsI GCATC 5 cut(s) 47, 190, 251, 516, 523
BmuI ACTGGG 2 cut(s) 283, 438
BplI GAGNNNNNCTC 2 cut(s) 135, 167
BpmI CTGGAG 1 cut(s) 153
BsaHI GRCGYC 1 cut(s) 24
BsaJI CCNNGG 1 cut(s) 139
BsaXI ACNNNNNCTCC 2 cut(s) 712, 742
Bsc4I CCNNNNNNNGG 2 cut(s) 11, 348
Bse1I ACTGG 4 cut(s) 97, 170, 278, 433
BseDI CCNNGG 1 cut(s) 139
BseGI GGATG 4 cut(s) 127, 205, 453, 609
BseLI CCNNNNNNNGG 2 cut(s) 11, 348
BseNI ACTGG 4 cut(s) 97, 170, 278, 433
BseRI GAGGAG 1 cut(s) 523
BseXI GCAGC 1 cut(s) 268
BsgI GTGCAG 1 cut(s) 112
Bsh1285I CGRYCG 1 cut(s) 270
BsiEI CGRYCG 1 cut(s) 270
BsiHKAI GWGCWC 1 cut(s) 666
BslFI GGGAC 1 cut(s) 35
BslI CCNNNNNNNGG 2 cut(s) 11, 348
BsmFI GGGAC 1 cut(s) 35
BsmI GAATGC 1 cut(s) 410
Bsp1286I GDGCHC 1 cut(s) 666
Bsp143I GATC 4 cut(s) 31, 101, 267, 544
Bsp19I CCATGG 1 cut(s) 139
BspACI CCGC 2 cut(s) 485, 573
BspHI TCATGA 1 cut(s) 541
BspLI GGNNCC 1 cut(s) 471
BspPI GGATC 1 cut(s) 26
BsrI ACTGG 4 cut(s) 97, 170, 278, 433
BssECI CCNNGG 1 cut(s) 139
BssMI GATC 4 cut(s) 31, 101, 267, 544
BssNI GRCGYC 1 cut(s) 24
BssT1I CCWWGG 1 cut(s) 139
Bst4CI ACNGT 1 cut(s) 58
Bst6I CTCTTC 3 cut(s) 341, 716, 741
BstACI GRCGYC 1 cut(s) 24
BstAPI GCANNNNNTGC 1 cut(s) 581
BstDEI CTNAG 1 cut(s) 81
BstDSI CCRYGG 1 cut(s) 139
BstEII GGTNACC 1 cut(s) 108
BstENI CCTNNNNNAGG 1 cut(s) 346
BstF5I GGATG 4 cut(s) 127, 205, 453, 609
BstKTI GATC 4 cut(s) 34, 104, 270, 547
BstMBI GATC 4 cut(s) 31, 101, 267, 544
BstMCI CGRYCG 1 cut(s) 270
BstMWI GCNNNNNNNGC 2 cut(s) 209, 581
BstPI GGTNACC 1 cut(s) 108
BstV1I GCAGC 1 cut(s) 268
BstX2I RGATCY 1 cut(s) 101
BstYI RGATCY 1 cut(s) 101
BtgI CCRYGG 1 cut(s) 139
BtrI CACGTC 1 cut(s) 550
BtsCI GGATG 4 cut(s) 127, 205, 453, 609
BtsIMutI CAGTG 1 cut(s) 34
CaiI CAGNNNCTG 2 cut(s) 176, 581
CciI TCATGA 1 cut(s) 541
Cfr13I GGNCC 1 cut(s) 320
CviAII CATG 3 cut(s) 140, 466, 542
CviJI RGCY 3 cut(s) 160, 278, 664
CviKI_1 RGCY 3 cut(s) 160, 278, 664
DdeI CTNAG 1 cut(s) 81
DpnI GATC 4 cut(s) 33, 103, 269, 546
DpnII GATC 4 cut(s) 31, 101, 267, 544
Eam1104I CTCTTC 3 cut(s) 341, 716, 741
EarI CTCTTC 3 cut(s) 341, 716, 741
Ecl136II GAGCTC 1 cut(s) 664
Eco130I CCWWGG 1 cut(s) 139
Eco24I GRGCYC 1 cut(s) 666
Eco47I GGWCC 1 cut(s) 320
Eco53kI GAGCTC 1 cut(s) 664
Eco57I CTGAAG 2 cut(s) 167, 300
Eco91I GGTNACC 1 cut(s) 108
EcoICRI GAGCTC 1 cut(s) 664
EcoNI CCTNNNNNAGG 1 cut(s) 346
EcoO65I GGTNACC 1 cut(s) 108
EcoT14I CCWWGG 1 cut(s) 139
EcoT22I ATGCAT 2 cut(s) 467, 531
EcoT38I GRGCYC 1 cut(s) 666
ErhI CCWWGG 1 cut(s) 139
FaeI CATG 3 cut(s) 143, 469, 545
FalI AAGNNNNNCTT 2 cut(s) 681, 713
FaqI GGGAC 1 cut(s) 35
FatI CATG 3 cut(s) 139, 465, 541
FbaI TGATCA 1 cut(s) 544
Fnu4HI GCNGC 1 cut(s) 257
FokI GGATG 4 cut(s) 134, 212, 440, 616
FriOI GRGCYC 1 cut(s) 666
Fsp4HI GCNGC 1 cut(s) 257
GluI GCNGC 1 cut(s) 257
GsuI CTGGAG 1 cut(s) 153
Hin1I GRCGYC 1 cut(s) 24
Hin1II CATG 3 cut(s) 143, 469, 545
HinfI GANTC 1 cut(s) 51
HphI GGTGA 3 cut(s) 26, 102, 279
Hpy188I TCNGA 1 cut(s) 155
Hpy188III TCNNGA 3 cut(s) 193, 518, 542
HpyAV CCTTC 1 cut(s) 302
HpyCH4III ACNGT 1 cut(s) 58
HpyCH4IV ACGT 2 cut(s) 24, 549
HpyF10VI GCNNNNNNNGC 2 cut(s) 209, 581
HpyF3I CTNAG 1 cut(s) 81
HpySE526I ACGT 2 cut(s) 24, 549
Hsp92I GRCGYC 1 cut(s) 24
Hsp92II CATG 3 cut(s) 143, 469, 545
Ksp22I TGATCA 1 cut(s) 544
Kzo9I GATC 4 cut(s) 31, 101, 267, 544
LmnI GCTCC 2 cut(s) 143, 661
Lsp1109I GCAGC 1 cut(s) 268
LweI GCATC 5 cut(s) 47, 190, 251, 516, 523
MaeII ACGT 2 cut(s) 24, 549
MaeIII GTNAC 2 cut(s) 108, 773
MalI GATC 4 cut(s) 33, 103, 269, 546
MboI GATC 4 cut(s) 31, 101, 267, 544
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 666
MluCI AATT 4 cut(s) 335, 364, 692, 723
Mph1103I ATGCAT 2 cut(s) 467, 531
MseI TTAA 3 cut(s) 251, 425, 633
MslI CAYNNNNRTG 1 cut(s) 552
Mva1269I GAATGC 1 cut(s) 410
MwoI GCNNNNNNNGC 2 cut(s) 209, 581
NcoI CCATGG 1 cut(s) 139
NdeII GATC 4 cut(s) 31, 101, 267, 544
NlaIII CATG 3 cut(s) 143, 469, 545
NlaIV GGNNCC 1 cut(s) 471
NmuCI GTSAC 1 cut(s) 108
NsiI ATGCAT 2 cut(s) 467, 531
OliI CACNNNNGTG 1 cut(s) 552
PagI TCATGA 1 cut(s) 541
PctI GAATGC 1 cut(s) 410
PfeI GAWTC 1 cut(s) 51
PkrI GCNGC 1 cut(s) 258
Ple19I CGATCG 1 cut(s) 270
Psp124BI GAGCTC 1 cut(s) 666
PspEI GGTNACC 1 cut(s) 108
PspN4I GGNNCC 1 cut(s) 471
PspPI GGNCC 1 cut(s) 320
PsrI GAACNNNNNNTAC 4 cut(s) 453, 485, 580, 612
PstNI CAGNNNCTG 2 cut(s) 176, 581
PsuI RGATCY 1 cut(s) 101
PvuI CGATCG 1 cut(s) 270
RseI CAYNNNNRTG 1 cut(s) 552
SacI GAGCTC 1 cut(s) 666
SaqAI TTAA 3 cut(s) 251, 425, 633
SatI GCNGC 1 cut(s) 257
Sau3AI GATC 4 cut(s) 31, 101, 267, 544
Sau96I GGNCC 1 cut(s) 320
SduI GDGCHC 1 cut(s) 666
SetI ASST 5 cut(s) 27, 439, 552, 625, 666
SfaNI GCATC 5 cut(s) 47, 190, 251, 516, 523
SinI GGWCC 1 cut(s) 320
SmiMI CAYNNNNRTG 1 cut(s) 552
Sse9I AATT 4 cut(s) 335, 364, 692, 723
SsiI CCGC 2 cut(s) 485, 573
SstI GAGCTC 1 cut(s) 666
StyI CCWWGG 1 cut(s) 139
TaaI ACNGT 1 cut(s) 58
TaiI ACGT 2 cut(s) 27, 552
TaqI TCGA 5 cut(s) 266, 270, 359, 492, 519
TasI AATT 4 cut(s) 335, 364, 692, 723
TfiI GAWTC 1 cut(s) 51
Tru1I TTAA 3 cut(s) 251, 425, 633
Tru9I TTAA 3 cut(s) 251, 425, 633
TscAI CASTG 1 cut(s) 34
TseFI GTSAC 1 cut(s) 108
TseI GCWGC 1 cut(s) 256
Tsp45I GTSAC 1 cut(s) 108
TspDTI ATGAA 4 cut(s) 407, 442, 527, 620
TspGWI ACGGA 3 cut(s) 320, 520, 542
TspRI CASTG 1 cut(s) 34
VpaK11BI GGWCC 1 cut(s) 320
XagI CCTNNNNNAGG 1 cut(s) 346
ZraI GACGTC 1 cut(s) 25
Zsp2I ATGCAT 2 cut(s) 467, 531
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.