MD17G1019800.v1.1

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr17
OG0005964
Physical Location & Seq
Forward (+)
1510392 .. 1510848
457 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1019800.v1.1.491

Sequence Viewer

Length: 228 bp
ATGTGTGTGTGTTTTGTGCAGCCGGAAATGGGACGGCCCTTGCCTAAATTTGGAGACTGGGATGTGAACAACCCAGCATCAGCTGAAGGGTTTACTATGATATTTACCAGAGCTAGAGATCAGAAGATGACCAATGGGCCGCCTGACAATGGGACTCCGGCTCCCTCTTCAACCAAACCAATAAACAATCAATATCCCCAAGAGAAAAAATGGTTTTGCTGTTTGTGA
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

76

Amino Acids

8.44

Weight (kDa)

7.63

Isoelectric Point (pI)

36.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 11 - 43 4.1e-18 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)
AciI CCGC 1 cut(s) 140
AcsI RAATTY 1 cut(s) 47
AcuI CTGAAG 1 cut(s) 105
AfiI CCNNNNNNNGG 3 cut(s) 29, 50, 149
AgsI TTSAA 1 cut(s) 171
AluBI AGCT 2 cut(s) 83, 113
AluI AGCT 2 cut(s) 83, 113
Alw26I GTCTC 1 cut(s) 48
AoxI GGCC 2 cut(s) 35, 137
ApeKI GCWGC 1 cut(s) 19
ApoI RAATTY 1 cut(s) 47
AspS9I GGNCC 2 cut(s) 36, 137
BbvI GCAGC 1 cut(s) 31
BceAI ACGGC 1 cut(s) 50
BcoDI GTCTC 1 cut(s) 48
BfaI CTAG 1 cut(s) 114
BisI GCNGC 2 cut(s) 20, 140
BlsI GCNGC 2 cut(s) 21, 141
BmgT120I GGNCC 2 cut(s) 36, 137
BmiI GGNNCC 1 cut(s) 162
BmrI ACTGGG 1 cut(s) 67
BmsI GCATC 1 cut(s) 86
BmuI ACTGGG 1 cut(s) 67
BsaXI ACNNNNNCTCC 2 cut(s) 145, 175
Bsc4I CCNNNNNNNGG 3 cut(s) 29, 50, 149
Bse1I ACTGG 1 cut(s) 62
BseGI GGATG 1 cut(s) 67
BseLI CCNNNNNNNGG 3 cut(s) 29, 50, 149
BseNI ACTGG 1 cut(s) 62
BseXI GCAGC 1 cut(s) 31
BseYI CCCAGC 1 cut(s) 73
BsgI GTGCAG 1 cut(s) 38
BshFI GGCC 2 cut(s) 37, 139
BsiSI CCGG 2 cut(s) 23, 158
BslFI GGGAC 2 cut(s) 45, 166
BslI CCNNNNNNNGG 3 cut(s) 29, 50, 149
BsmAI GTCTC 1 cut(s) 48
BsmFI GGGAC 2 cut(s) 45, 166
BsnI GGCC 2 cut(s) 37, 139
Bsp143I GATC 1 cut(s) 118
BspACI CCGC 1 cut(s) 140
BspANI GGCC 2 cut(s) 37, 139
BspLI GGNNCC 1 cut(s) 162
BsrI ACTGG 1 cut(s) 62
BssMI GATC 1 cut(s) 118
Bst6I CTCTTC 1 cut(s) 172
BstF5I GGATG 1 cut(s) 67
BstKTI GATC 1 cut(s) 121
BstMAI GTCTC 1 cut(s) 48
BstMBI GATC 1 cut(s) 118
BstV1I GCAGC 1 cut(s) 31
BsuRI GGCC 2 cut(s) 37, 139
BtsCI GGATG 1 cut(s) 67
Cfr13I GGNCC 2 cut(s) 36, 137
CviJI RGCY 6 cut(s) 22, 37, 83, 113, 139, 161
CviKI_1 RGCY 6 cut(s) 22, 37, 83, 113, 139, 161
DpnI GATC 1 cut(s) 120
DpnII GATC 1 cut(s) 118
Eam1104I CTCTTC 1 cut(s) 172
EarI CTCTTC 1 cut(s) 172
Eco57I CTGAAG 1 cut(s) 105
FaiI YATR 1 cut(s) 98
FaqI GGGAC 2 cut(s) 45, 166
Fnu4HI GCNGC 2 cut(s) 20, 140
FokI GGATG 1 cut(s) 74
Fsp4HI GCNGC 2 cut(s) 20, 140
FspBI CTAG 1 cut(s) 114
GluI GCNGC 2 cut(s) 20, 140
GsaI CCCAGC 1 cut(s) 77
HaeIII GGCC 2 cut(s) 37, 139
HapII CCGG 2 cut(s) 23, 158
HinfI GANTC 1 cut(s) 154
HpaII CCGG 2 cut(s) 23, 158
Hpy166II GTNNAC 2 cut(s) 67, 93
Hpy188I TCNGA 1 cut(s) 123
Hpy8I GTNNAC 2 cut(s) 67, 93
HpyAV CCTTC 1 cut(s) 80
HpyCH4V TGCA 1 cut(s) 19
Kzo9I GATC 1 cut(s) 118
LmnI GCTCC 1 cut(s) 166
LpnPI CCDG 6 cut(s) 36, 43, 87, 121, 156, 171
Lsp1109I GCAGC 1 cut(s) 31
LweI GCATC 1 cut(s) 86
MaeI CTAG 1 cut(s) 114
MalI GATC 1 cut(s) 120
MboI GATC 1 cut(s) 118
MboII GAAGA 2 cut(s) 136, 159
MluCI AATT 1 cut(s) 47
MlyI GAGTC 1 cut(s) 148
MnlI CCTC 1 cut(s) 175
MspA1I CMGCKG 1 cut(s) 83
MspI CCGG 2 cut(s) 23, 158
NdeII GATC 1 cut(s) 118
NlaIV GGNNCC 1 cut(s) 162
PkrI GCNGC 2 cut(s) 21, 141
PleI GAGTC 1 cut(s) 148
PpsI GAGTC 1 cut(s) 148
PspFI CCCAGC 1 cut(s) 73
PspN4I GGNNCC 1 cut(s) 162
PspPI GGNCC 2 cut(s) 36, 137
PvuII CAGCTG 1 cut(s) 83
SatI GCNGC 2 cut(s) 20, 140
Sau3AI GATC 1 cut(s) 118
Sau96I GGNCC 2 cut(s) 36, 137
SchI GAGTC 1 cut(s) 148
SetI ASST 2 cut(s) 85, 115
SfaNI GCATC 1 cut(s) 86
SgeI CNNG 9 cut(s) 35, 52, 70, 86, 120, 126, 155, 170, 212
Sse9I AATT 1 cut(s) 47
SsiI CCGC 1 cut(s) 140
SspMI CTAG 1 cut(s) 114
TasI AATT 1 cut(s) 47
TauI GCSGC 1 cut(s) 142
TseI GCWGC 1 cut(s) 19
XapI RAATTY 1 cut(s) 47
XspI CTAG 1 cut(s) 114
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.