Rorug06G0255200

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0005965
Physical Location & Seq
Reverse (-)
40156994 .. 40159722
2729 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0255200.1

Sequence Viewer

Length: 1011 bp
ATGGAGAAGGAAAAGAAGTCCCCAGTTTCCGATGTGGGAGCGTGGGGTATGAATATTGTGAGCTCCGTGGGCATTATCATGGCCAACAAGCAGCTTATGTCCCCTGCTGGCTTTGCTTTTGGTTTTGCTACAACTTTGACTGGCTTCCACTTCTCTGTTACTGCATTGGTTGGTTTCATATCGAATGCATCTGGGTACTCAGCATCGAAACATGTTCCTCTCTGGGAACTTATTTGGTTCTCTCTTGTAGCCAATGCCTCTATCACCGGGATGAACTTGAGTCTCATGCTTAACTCTGTCGGGTTTTATCAGATATCGAAGTTGAGCATGATTCCGGTGGTCTGTGTGATGGAGTGGATTATCCATGGTAAAAATTTCTCAAGGGAAGTCAAGATCGCTGTGGCAGTGGTGGTAATAGGTGTGGGCATATGTACCGTCACCGATGTTAAAGTTAATGCCAAAGGCTTTCTCTGCGCTTGTGTGGCCATCTTGTGTACATCATTACAACAAATTTCAATAGGTTCATTACAGAAGAAATACTCAGTAGGCTCATTTGAATTGCTCAGCAAGACAGCTCCAATTCAAGCTATCTCCCTTCTCATTCTTGGTCCATTCGTTGATTACTTTCTTACTGGAAAACTTTTAACAGATTACAAGATGACTTCTGGTGCATTTGCTTTCATACTACTCTCATGCTCCCTAGCAGTATTCTGCAACATCAGTCAGTACCTCTGCATCGGAAGATTCTCAGCCGTGTCATTCCAGGTTTTAGGCCACATGAAGACCGTCTGTGTCTTGACATTGGGGTGGCTACTCTTTGATTCAGCGCTCACATTTAAGAACTTGATGGGAATGGCTCTTGCAGTTGTCGGCATGATAGTTTACAGTTGGGCTGTAGAGGCTGAGAAGCAAACTAAGACGTCCCTCCCAAGCACTCTCACAGAAGAAGATCTAAAACCACTGAAAGAGGGAATTGCAGAAATCCCAGTGAATGGTGAGGCTAAAGTATAG
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

336

Amino Acids

36.14

Weight (kDa)

8.65

Isoelectric Point (pI)

29.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPT PF03151 22 - 296 5.3e-20 Triose-phosphate Transporter family
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)
AatII GACGTC 1 cut(s) 923
AccB7I CCANNNNNTGG 1 cut(s) 992
AcoI YGGCCR 2 cut(s) 81, 483
AcsI RAATTY 2 cut(s) 373, 510
AcyI GRCGYC 1 cut(s) 920
AfaI GTAC 4 cut(s) 197, 433, 496, 728
AfeI AGCGCT 1 cut(s) 828
AfiI CCNNNNNNNGG 1 cut(s) 992
AflIII ACRYGT 1 cut(s) 211
AgsI TTSAA 3 cut(s) 516, 557, 584
AjnI CCWGG 1 cut(s) 762
AluBI AGCT 4 cut(s) 63, 94, 575, 587
AluI AGCT 4 cut(s) 63, 94, 575, 587
Alw21I GWGCWC 1 cut(s) 65
Alw26I GTCTC 1 cut(s) 287
Aor51HI AGCGCT 1 cut(s) 828
AoxI GGCC 3 cut(s) 81, 483, 772
ApeKI GCWGC 1 cut(s) 91
ApoI RAATTY 2 cut(s) 373, 510
AspLEI GCGC 2 cut(s) 476, 829
AspS9I GGNCC 1 cut(s) 608
AsuC2I CCSGG 1 cut(s) 268
AsuHPI GGTGA 3 cut(s) 256, 430, 1007
AvaII GGWCC 1 cut(s) 608
BalI TGGCCA 2 cut(s) 83, 485
BanII GRGCYC 1 cut(s) 65
BbsI GAAGAC 1 cut(s) 788
Bbv12I GWGCWC 1 cut(s) 65
BbvI GCAGC 1 cut(s) 103
BccI CCATC 3 cut(s) 343, 494, 841
BceAI ACGGC 1 cut(s) 737
BciT130I CCWGG 1 cut(s) 764
BcnI CCSGG 1 cut(s) 268
BcoDI GTCTC 1 cut(s) 287
BfaI CTAG 1 cut(s) 701
BfmI CTRYAG 1 cut(s) 894
BfoI RGCGCY 1 cut(s) 830
BglII AGATCT 1 cut(s) 949
BisI GCNGC 1 cut(s) 92
BlpI GCTNAGC 1 cut(s) 563
BlsI GCNGC 1 cut(s) 93
Bme1390I CCNGG 2 cut(s) 268, 764
Bme18I GGWCC 1 cut(s) 608
BmgT120I GGNCC 1 cut(s) 608
BmrFI CCNGG 2 cut(s) 268, 764
BmrI ACTGGG 2 cut(s) 17, 980
BmsI GCATC 3 cut(s) 197, 212, 744
BmuI ACTGGG 2 cut(s) 17, 980
BpiI GAAGAC 1 cut(s) 788
Bpu1102I GCTNAGC 1 cut(s) 563
BpuEI CTTGAG 2 cut(s) 298, 364
BpuMI CCSGG 1 cut(s) 268
BsaHI GRCGYC 1 cut(s) 920
BsaJI CCNNGG 2 cut(s) 66, 364
BsaWI WCCGGW 1 cut(s) 334
Bsc4I CCNNNNNNNGG 1 cut(s) 992
Bse1I ACTGG 4 cut(s) 23, 145, 637, 986
BseBI CCWGG 1 cut(s) 764
BseDI CCNNGG 2 cut(s) 66, 364
BseGI GGATG 1 cut(s) 276
BseLI CCNNNNNNNGG 1 cut(s) 992
BseMII CTCAG 5 cut(s) 213, 555, 577, 762, 894
BseNI ACTGG 4 cut(s) 23, 145, 637, 986
BseXI GCAGC 1 cut(s) 103
BshFI GGCC 3 cut(s) 83, 485, 774
BsiHKAI GWGCWC 1 cut(s) 65
BsiSI CCGG 2 cut(s) 267, 335
BslFI GGGAC 3 cut(s) 4, 85, 907
BslI CCNNNNNNNGG 1 cut(s) 992
BsmAI GTCTC 1 cut(s) 287
BsmFI GGGAC 3 cut(s) 4, 85, 907
BsmI GAATGC 1 cut(s) 190
BsnI GGCC 3 cut(s) 83, 485, 774
Bsp1286I GDGCHC 1 cut(s) 65
Bsp1407I TGTACA 1 cut(s) 494
Bsp143I GATC 2 cut(s) 393, 949
Bsp1720I GCTNAGC 1 cut(s) 563
Bsp19I CCATGG 1 cut(s) 364
BspANI GGCC 3 cut(s) 83, 485, 774
BspCNI CTCAG 5 cut(s) 212, 554, 576, 761, 895
BsrGI TGTACA 1 cut(s) 494
BsrI ACTGG 4 cut(s) 23, 145, 637, 986
BssECI CCNNGG 2 cut(s) 66, 364
BssMI GATC 2 cut(s) 393, 949
BssNI GRCGYC 1 cut(s) 920
BssT1I CCWWGG 1 cut(s) 364
Bst2UI CCWGG 1 cut(s) 764
Bst4CI ACNGT 3 cut(s) 436, 787, 887
BstACI GRCGYC 1 cut(s) 920
BstAUI TGTACA 1 cut(s) 494
BstC8I GCNNGC 1 cut(s) 109
BstDEI CTNAG 6 cut(s) 199, 541, 563, 748, 903, 915
BstDSI CCRYGG 2 cut(s) 66, 364
BstF5I GGATG 1 cut(s) 276
BstH2I RGCGCY 1 cut(s) 830
BstHHI GCGC 2 cut(s) 476, 829
BstKTI GATC 2 cut(s) 396, 952
BstMAI GTCTC 1 cut(s) 287
BstMBI GATC 2 cut(s) 393, 949
BstMWI GCNNNNNNNGC 5 cut(s) 69, 113, 471, 482, 899
BstNI CCWGG 1 cut(s) 764
BstNSI RCATGY 1 cut(s) 215
BstSCI CCNGG 2 cut(s) 266, 762
BstSFI CTRYAG 1 cut(s) 894
BstV1I GCAGC 1 cut(s) 103
BstV2I GAAGAC 1 cut(s) 788
BstX2I RGATCY 1 cut(s) 949
BstYI RGATCY 1 cut(s) 949
BsuRI GGCC 3 cut(s) 83, 485, 774
BtgI CCRYGG 2 cut(s) 66, 364
BtsCI GGATG 1 cut(s) 276
BtsI GCAGTG 1 cut(s) 411
BtsIMutI CAGTG 3 cut(s) 411, 959, 993
Cac8I GCNNGC 1 cut(s) 109
CfoI GCGC 2 cut(s) 476, 829
Cfr13I GGNCC 1 cut(s) 608
Csp6I GTAC 4 cut(s) 196, 432, 495, 727
CviAII CATG 8 cut(s) 79, 212, 286, 328, 365, 693, 778, 874
CviQI GTAC 4 cut(s) 196, 432, 495, 727
DdeI CTNAG 6 cut(s) 199, 541, 563, 748, 903, 915
DpnI GATC 2 cut(s) 395, 951
DpnII GATC 2 cut(s) 393, 949
EaeI YGGCCR 2 cut(s) 81, 483
Ecl136II GAGCTC 1 cut(s) 63
Eco130I CCWWGG 1 cut(s) 364
Eco24I GRGCYC 1 cut(s) 65
Eco32I GATATC 1 cut(s) 315
Eco47I GGWCC 1 cut(s) 608
Eco47III AGCGCT 1 cut(s) 828
Eco53kI GAGCTC 1 cut(s) 63
EcoICRI GAGCTC 1 cut(s) 63
EcoRII CCWGG 1 cut(s) 762
EcoRV GATATC 1 cut(s) 315
EcoT14I CCWWGG 1 cut(s) 364
EcoT22I ATGCAT 1 cut(s) 190
EcoT38I GRGCYC 1 cut(s) 65
ErhI CCWWGG 1 cut(s) 364
FaeI CATG 8 cut(s) 82, 215, 289, 331, 368, 696, 781, 877
FaqI GGGAC 3 cut(s) 4, 85, 907
FatI CATG 8 cut(s) 78, 211, 285, 327, 364, 692, 777, 873
FauNDI CATATG 1 cut(s) 428
Fnu4HI GCNGC 1 cut(s) 92
FokI GGATG 1 cut(s) 283
FriOI GRGCYC 1 cut(s) 65
Fsp4HI GCNGC 1 cut(s) 92
FspBI CTAG 1 cut(s) 701
GlaI GCGC 2 cut(s) 475, 828
GluI GCNGC 1 cut(s) 92
HaeII RGCGCY 1 cut(s) 830
HaeIII GGCC 3 cut(s) 83, 485, 774
HapII CCGG 2 cut(s) 267, 335
HhaI GCGC 2 cut(s) 476, 829
Hin1I GRCGYC 1 cut(s) 920
Hin1II CATG 8 cut(s) 82, 215, 289, 331, 368, 696, 781, 877
Hin6I GCGC 2 cut(s) 474, 827
HinP1I GCGC 2 cut(s) 474, 827
HinfI GANTC 4 cut(s) 280, 331, 744, 821
HpaII CCGG 2 cut(s) 267, 335
HphI GGTGA 3 cut(s) 256, 430, 1007
Hpy166II GTNNAC 2 cut(s) 495, 883
Hpy188I TCNGA 3 cut(s) 31, 312, 740
Hpy188III TCNNGA 2 cut(s) 391, 796
Hpy8I GTNNAC 2 cut(s) 495, 883
HpyAV CCTTC 1 cut(s) 605
HpyCH4III ACNGT 3 cut(s) 436, 787, 887
HpyCH4IV ACGT 1 cut(s) 920
HpyCH4V TGCA 7 cut(s) 164, 188, 671, 714, 735, 863, 977
HpyF10VI GCNNNNNNNGC 5 cut(s) 69, 113, 471, 482, 899
HpyF3I CTNAG 6 cut(s) 199, 541, 563, 748, 903, 915
HpySE526I ACGT 1 cut(s) 920
Hsp92I GRCGYC 1 cut(s) 920
Hsp92II CATG 8 cut(s) 82, 215, 289, 331, 368, 696, 781, 877
HspAI GCGC 2 cut(s) 474, 827
Kzo9I GATC 2 cut(s) 393, 949
LmnI GCTCC 4 cut(s) 38, 68, 580, 701
Lsp1109I GCAGC 1 cut(s) 103
LweI GCATC 3 cut(s) 197, 212, 744
MaeI CTAG 1 cut(s) 701
MaeII ACGT 1 cut(s) 920
MaeIII GTNAC 2 cut(s) 157, 436
MalI GATC 2 cut(s) 395, 951
MboI GATC 2 cut(s) 393, 949
MboII GAAGA 5 cut(s) 544, 753, 793, 956, 959
MflI RGATCY 1 cut(s) 949
MhlI GDGCHC 1 cut(s) 65
MlsI TGGCCA 2 cut(s) 83, 485
MluCI AATT 5 cut(s) 373, 510, 557, 579, 972
MluNI TGGCCA 2 cut(s) 83, 485
MlyI GAGTC 1 cut(s) 289
MnlI CCTC 7 cut(s) 228, 268, 740, 892, 935, 961, 991
Mox20I TGGCCA 2 cut(s) 83, 485
Mph1103I ATGCAT 1 cut(s) 190
MscI TGGCCA 2 cut(s) 83, 485
MseI TTAA 5 cut(s) 291, 447, 453, 644, 837
MslI CAYNNNNRTG 3 cut(s) 77, 269, 805
Msp20I TGGCCA 2 cut(s) 83, 485
MspI CCGG 2 cut(s) 267, 335
MspR9I CCNGG 2 cut(s) 268, 764
Mva1269I GAATGC 1 cut(s) 190
MvaI CCWGG 1 cut(s) 764
MwoI GCNNNNNNNGC 5 cut(s) 69, 113, 471, 482, 899
NciI CCSGG 1 cut(s) 268
NcoI CCATGG 1 cut(s) 364
NdeI CATATG 1 cut(s) 428
NdeII GATC 2 cut(s) 393, 949
NlaIII CATG 8 cut(s) 82, 215, 289, 331, 368, 696, 781, 877
NmuCI GTSAC 1 cut(s) 436
NsiI ATGCAT 1 cut(s) 190
NspI RCATGY 1 cut(s) 215
PciI ACATGT 1 cut(s) 211
PctI GAATGC 1 cut(s) 190
PfeI GAWTC 3 cut(s) 331, 744, 821
PflMI CCANNNNNTGG 1 cut(s) 992
PkrI GCNGC 1 cut(s) 93
PleI GAGTC 1 cut(s) 288
PpsI GAGTC 1 cut(s) 288
PscI ACATGT 1 cut(s) 211
Psp124BI GAGCTC 1 cut(s) 65
Psp6I CCWGG 1 cut(s) 762
PspGI CCWGG 1 cut(s) 762
PspPI GGNCC 1 cut(s) 608
PsuI RGATCY 1 cut(s) 949
RsaI GTAC 4 cut(s) 197, 433, 496, 728
RsaNI GTAC 4 cut(s) 196, 432, 495, 727
RseI CAYNNNNRTG 3 cut(s) 77, 269, 805
SacI GAGCTC 1 cut(s) 65
SaqAI TTAA 5 cut(s) 291, 447, 453, 644, 837
SatI GCNGC 1 cut(s) 92
Sau3AI GATC 2 cut(s) 393, 949
Sau96I GGNCC 1 cut(s) 608
SchI GAGTC 1 cut(s) 289
ScrFI CCNGG 2 cut(s) 268, 764
SduI GDGCHC 1 cut(s) 65
SetI ASST 9 cut(s) 65, 96, 421, 523, 577, 589, 732, 768, 923
SfaNI GCATC 3 cut(s) 197, 212, 744
SfcI CTRYAG 1 cut(s) 894
SinI GGWCC 1 cut(s) 608
SmiMI CAYNNNNRTG 3 cut(s) 77, 269, 805
SmlI CTYRAG 2 cut(s) 277, 379
SmoI CTYRAG 2 cut(s) 277, 379
Sse9I AATT 5 cut(s) 373, 510, 557, 579, 972
SspI AATATT 1 cut(s) 55
SspMI CTAG 1 cut(s) 701
SstI GAGCTC 1 cut(s) 65
StyD4I CCNGG 2 cut(s) 266, 762
StyI CCWWGG 1 cut(s) 364
TaaI ACNGT 3 cut(s) 436, 787, 887
TaiI ACGT 1 cut(s) 923
TaqI TCGA 3 cut(s) 182, 206, 317
TasI AATT 5 cut(s) 373, 510, 557, 579, 972
TatI WGTACW 1 cut(s) 494
TfiI GAWTC 3 cut(s) 331, 744, 821
Tru1I TTAA 5 cut(s) 291, 447, 453, 644, 837
Tru9I TTAA 5 cut(s) 291, 447, 453, 644, 837
TscAI CASTG 3 cut(s) 411, 966, 993
TseFI GTSAC 1 cut(s) 436
TseI GCWGC 1 cut(s) 91
Tsp45I GTSAC 1 cut(s) 436
TspDTI ATGAA 6 cut(s) 65, 166, 287, 513, 670, 794
TspGWI ACGGA 1 cut(s) 55
TspRI CASTG 3 cut(s) 411, 966, 993
Van91I CCANNNNNTGG 1 cut(s) 992
VpaK11BI GGWCC 1 cut(s) 608
XapI RAATTY 2 cut(s) 373, 510
XceI RCATGY 1 cut(s) 215
XspI CTAG 1 cut(s) 701
ZraI GACGTC 1 cut(s) 921
Zsp2I ATGCAT 1 cut(s) 190
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.