Rh5AG332100

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0012034
Physical Location & Seq
Forward (+)
52986458 .. 52989472
3015 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG332100.1

Sequence Viewer

Length: 333 bp
ATGGGACACCGGGAGGAGGGAAATGGTCGGAAGTCAATTCCTCAATTTGGAGGATGGGAACAAAACGCCACAGTAGAGCCTACCAGCTATACTGTGGTGTTTAGTCAAGCTCGTGCTAACCGGAAGCAAAATAAGACTGACTTGACCGAGTTCAAGCGCAACAGCCTTGGAAATGAACATGAATTAATGACTGCTCAAGGCCATCATGATCATCGTCATCATTCTGATGATTCTGTTACGGTAACACTATCTGTTTCGATCTCCAATTATTCCTTACATATCATCTTAGTAGTTGATTTAATTTTTCTTTTTTCTCTCTTTTCATGCAGATGA
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

110

Amino Acids

12.51

Weight (kDa)

6.7

Isoelectric Point (pI)

34.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 9 - 42 1.6e-09 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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Publication-ready
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Orthologous Genes (Group: OG0012034)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G19473 AT5G19473
fragaria_vesca FvH4_3g27760 FvH4_3g27760
malus_domestica MD03G1164700.v1.1
prunus_persica Prupe.4G264200_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0050361
rosa_laevigata RLG00000034699
rosa_multiflora Rmu_sc0005060.1_g000015
rosa_roxburghii Rroxscaffold_1G00030580
rosa_rugosa Rorug05G0260100 Rorug05G0260200 Rorug05G0260300 Rorug05G0260400
rosa_samantha Rh5AG332100 Rh5BG342400 Rh5CG369600 Rh5DG355200
rosa_wichuraiana Rw5G031390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfiI CCNNNNNNNGG 2 cut(s) 16, 47
AgsI TTSAA 1 cut(s) 154
AluBI AGCT 2 cut(s) 87, 110
AluI AGCT 2 cut(s) 87, 110
AoxI GGCC 1 cut(s) 199
AseI ATTAAT 1 cut(s) 185
AspLEI GCGC 1 cut(s) 159
AsuC2I CCSGG 1 cut(s) 11
BauI CACGAG 1 cut(s) 111
BccI CCATC 2 cut(s) 48, 210
BclI TGATCA 1 cut(s) 208
BcnI CCSGG 1 cut(s) 11
Bme1390I CCNGG 1 cut(s) 11
BmrFI CCNGG 1 cut(s) 11
BpuEI CTTGAG 1 cut(s) 180
BpuMI CCSGG 1 cut(s) 11
BsaJI CCNNGG 1 cut(s) 166
BsaWI WCCGGW 1 cut(s) 120
Bsc4I CCNNNNNNNGG 2 cut(s) 16, 47
BseDI CCNNGG 1 cut(s) 166
BseGI GGATG 1 cut(s) 59
BseLI CCNNNNNNNGG 2 cut(s) 16, 47
BseRI GAGGAG 1 cut(s) 29
BshFI GGCC 1 cut(s) 201
BsiSI CCGG 2 cut(s) 10, 121
BslFI GGGAC 1 cut(s) 18
BslI CCNNNNNNNGG 2 cut(s) 16, 47
BsmFI GGGAC 1 cut(s) 18
BsnI GGCC 1 cut(s) 201
Bsp143I GATC 2 cut(s) 208, 258
BspANI GGCC 1 cut(s) 201
BspHI TCATGA 1 cut(s) 205
BssECI CCNNGG 1 cut(s) 166
BssMI GATC 2 cut(s) 208, 258
BssSI CACGAG 1 cut(s) 111
BssT1I CCWWGG 1 cut(s) 166
Bst2BI CACGAG 1 cut(s) 111
Bst4CI ACNGT 3 cut(s) 73, 94, 241
BstDEI CTNAG 1 cut(s) 286
BstF5I GGATG 1 cut(s) 59
BstHHI GCGC 1 cut(s) 159
BstKTI GATC 2 cut(s) 211, 261
BstMBI GATC 2 cut(s) 208, 258
BstSCI CCNGG 1 cut(s) 9
BsuRI GGCC 1 cut(s) 201
BtsCI GGATG 1 cut(s) 59
CciI TCATGA 1 cut(s) 205
CfoI GCGC 1 cut(s) 159
CviAII CATG 3 cut(s) 179, 206, 324
CviJI RGCY 5 cut(s) 79, 87, 110, 165, 201
CviKI_1 RGCY 5 cut(s) 79, 87, 110, 165, 201
DdeI CTNAG 1 cut(s) 286
DpnI GATC 2 cut(s) 210, 260
DpnII GATC 2 cut(s) 208, 258
Eco130I CCWWGG 1 cut(s) 166
EcoT14I CCWWGG 1 cut(s) 166
ErhI CCWWGG 1 cut(s) 166
FaeI CATG 3 cut(s) 182, 209, 327
FaiI YATR 5 cut(s) 90, 180, 207, 279, 325
FalI AAGNNNNNCTT 2 cut(s) 125, 157
FaqI GGGAC 1 cut(s) 18
FatI CATG 3 cut(s) 178, 205, 323
FbaI TGATCA 1 cut(s) 208
FokI GGATG 1 cut(s) 66
GlaI GCGC 1 cut(s) 158
HaeIII GGCC 1 cut(s) 201
HapII CCGG 2 cut(s) 10, 121
HhaI GCGC 1 cut(s) 159
Hin1II CATG 3 cut(s) 182, 209, 327
Hin6I GCGC 1 cut(s) 157
HinP1I GCGC 1 cut(s) 157
HinfI GANTC 1 cut(s) 230
HpaII CCGG 2 cut(s) 10, 121
Hpy188I TCNGA 2 cut(s) 30, 226
Hpy188III TCNNGA 1 cut(s) 206
HpyCH4III ACNGT 3 cut(s) 73, 94, 241
HpyCH4V TGCA 1 cut(s) 327
HpyF3I CTNAG 1 cut(s) 286
Hsp92II CATG 3 cut(s) 182, 209, 327
HspAI GCGC 1 cut(s) 157
Ksp22I TGATCA 1 cut(s) 208
Kzo9I GATC 2 cut(s) 208, 258
LpnPI CCDG 3 cut(s) 23, 97, 134
MaeIII GTNAC 2 cut(s) 235, 241
MalI GATC 2 cut(s) 210, 260
MboI GATC 2 cut(s) 208, 258
MluCI AATT 5 cut(s) 36, 44, 182, 265, 300
MmeI TCCRAC 1 cut(s) 8
MnlI CCTC 4 cut(s) 7, 10, 44, 51
MseI TTAA 2 cut(s) 185, 299
MslI CAYNNNNRTG 2 cut(s) 225, 328
MspI CCGG 2 cut(s) 10, 121
MspR9I CCNGG 1 cut(s) 11
NciI CCSGG 1 cut(s) 11
NdeII GATC 2 cut(s) 208, 258
NlaIII CATG 3 cut(s) 182, 209, 327
PagI TCATGA 1 cut(s) 205
PfeI GAWTC 1 cut(s) 230
PshBI ATTAAT 1 cut(s) 185
RseI CAYNNNNRTG 2 cut(s) 225, 328
SaqAI TTAA 2 cut(s) 185, 299
Sau3AI GATC 2 cut(s) 208, 258
ScrFI CCNGG 1 cut(s) 11
SetI ASST 2 cut(s) 89, 112
SmiMI CAYNNNNRTG 2 cut(s) 225, 328
SmlI CTYRAG 1 cut(s) 195
SmoI CTYRAG 1 cut(s) 195
Sse9I AATT 5 cut(s) 36, 44, 182, 265, 300
StyD4I CCNGG 1 cut(s) 9
StyI CCWWGG 1 cut(s) 166
TaaI ACNGT 3 cut(s) 73, 94, 241
TaqI TCGA 1 cut(s) 257
TaqII GACCGA 1 cut(s) 161
TasI AATT 5 cut(s) 36, 44, 182, 265, 300
TfiI GAWTC 1 cut(s) 230
Tru1I TTAA 2 cut(s) 185, 299
Tru9I TTAA 2 cut(s) 185, 299
TspDTI ATGAA 3 cut(s) 189, 195, 312
VspI ATTAAT 1 cut(s) 185
XcmI CCANNNNNNNNNTGG 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.