MD09G1019200.v1.1

Cleavage site for pathogenic type III effector avirulence factor Avr

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0005964
Physical Location & Seq
Forward (+)
1170267 .. 1170739
473 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1019200.v1.1.491

Sequence Viewer

Length: 189 bp
ATGGGACGGCCCTTGCCCAAATTTGGAGAGTGGGATGTGAACAACCCGGCATCAGCTGAAGGGTTTACTGTGATATTCACTAAAGCTAGAGATCAGAAGATGAACAATGGGGCTGCCAATGGGACTCCCTCCTCAACCAAACCAATAAACGATCAATATCCCCAAGAGAAATGGTTTTGCTGTTTGTGA
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

63

Amino Acids

6.91

Weight (kDa)

7.77

Isoelectric Point (pI)

27.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 2 - 34 1.9e-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

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 1 cut(s) 20
AcuI CTGAAG 1 cut(s) 78
AfiI CCNNNNNNNGG 1 cut(s) 23
AluBI AGCT 2 cut(s) 56, 86
AluI AGCT 2 cut(s) 56, 86
AoxI GGCC 1 cut(s) 8
ApeKI GCWGC 1 cut(s) 113
ApoI RAATTY 1 cut(s) 20
AspS9I GGNCC 1 cut(s) 9
AsuC2I CCSGG 1 cut(s) 47
BbvI GCAGC 1 cut(s) 100
BceAI ACGGC 1 cut(s) 23
BcnI CCSGG 1 cut(s) 47
BfaI CTAG 1 cut(s) 87
BisI GCNGC 1 cut(s) 114
BlsI GCNGC 1 cut(s) 115
Bme1390I CCNGG 1 cut(s) 47
BmgT120I GGNCC 1 cut(s) 9
BmrFI CCNGG 1 cut(s) 47
BmsI GCATC 1 cut(s) 59
BpuMI CCSGG 1 cut(s) 47
BsaBI GATNNNNATC 1 cut(s) 156
Bsc4I CCNNNNNNNGG 1 cut(s) 23
Bse8I GATNNNNATC 1 cut(s) 156
BseGI GGATG 1 cut(s) 40
BseJI GATNNNNATC 1 cut(s) 156
BseLI CCNNNNNNNGG 1 cut(s) 23
BseRI GAGGAG 1 cut(s) 121
BseXI GCAGC 1 cut(s) 100
BshFI GGCC 1 cut(s) 10
BsiSI CCGG 1 cut(s) 47
BslFI GGGAC 2 cut(s) 18, 136
BslI CCNNNNNNNGG 1 cut(s) 23
BsmFI GGGAC 2 cut(s) 18, 136
BsnI GGCC 1 cut(s) 10
Bsp143I GATC 2 cut(s) 91, 151
BspANI GGCC 1 cut(s) 10
BssMI GATC 2 cut(s) 91, 151
Bst4CI ACNGT 1 cut(s) 70
BstF5I GGATG 1 cut(s) 40
BstKTI GATC 2 cut(s) 94, 154
BstMBI GATC 2 cut(s) 91, 151
BstSCI CCNGG 1 cut(s) 45
BstV1I GCAGC 1 cut(s) 100
BsuRI GGCC 1 cut(s) 10
BtsCI GGATG 1 cut(s) 40
Cfr13I GGNCC 1 cut(s) 9
CviJI RGCY 4 cut(s) 10, 56, 86, 113
CviKI_1 RGCY 4 cut(s) 10, 56, 86, 113
DpnI GATC 2 cut(s) 93, 153
DpnII GATC 2 cut(s) 91, 151
Eco57I CTGAAG 1 cut(s) 78
FaqI GGGAC 2 cut(s) 18, 136
Fnu4HI GCNGC 1 cut(s) 114
FokI GGATG 1 cut(s) 47
Fsp4HI GCNGC 1 cut(s) 114
FspBI CTAG 1 cut(s) 87
GluI GCNGC 1 cut(s) 114
HaeIII GGCC 1 cut(s) 10
HapII CCGG 1 cut(s) 47
HinfI GANTC 1 cut(s) 124
HpaII CCGG 1 cut(s) 47
Hpy166II GTNNAC 2 cut(s) 40, 66
Hpy188I TCNGA 1 cut(s) 96
Hpy8I GTNNAC 2 cut(s) 40, 66
HpyAV CCTTC 1 cut(s) 53
HpyCH4III ACNGT 1 cut(s) 70
Kzo9I GATC 2 cut(s) 91, 151
LpnPI CCDG 1 cut(s) 60
Lsp1109I GCAGC 1 cut(s) 100
LweI GCATC 1 cut(s) 59
MaeI CTAG 1 cut(s) 87
MalI GATC 2 cut(s) 93, 153
MboI GATC 2 cut(s) 91, 151
MboII GAAGA 1 cut(s) 109
MluCI AATT 1 cut(s) 20
MlyI GAGTC 1 cut(s) 118
MnlI CCTC 2 cut(s) 139, 142
MspA1I CMGCKG 1 cut(s) 56
MspI CCGG 1 cut(s) 47
MspR9I CCNGG 1 cut(s) 47
NciI CCSGG 1 cut(s) 47
NdeII GATC 2 cut(s) 91, 151
PkrI GCNGC 1 cut(s) 115
PleI GAGTC 1 cut(s) 118
PpsI GAGTC 1 cut(s) 118
PspPI GGNCC 1 cut(s) 9
PvuII CAGCTG 1 cut(s) 56
SatI GCNGC 1 cut(s) 114
Sau3AI GATC 2 cut(s) 91, 151
Sau96I GGNCC 1 cut(s) 9
SchI GAGTC 1 cut(s) 118
ScrFI CCNGG 1 cut(s) 47
SetI ASST 2 cut(s) 58, 88
SfaNI GCATC 1 cut(s) 59
SgeI CNNG 5 cut(s) 25, 58, 59, 99, 176
Sse9I AATT 1 cut(s) 20
SspMI CTAG 1 cut(s) 87
StyD4I CCNGG 1 cut(s) 45
TaaI ACNGT 1 cut(s) 70
TasI AATT 1 cut(s) 20
TseI GCWGC 1 cut(s) 113
TspDTI ATGAA 1 cut(s) 116
XapI RAATTY 1 cut(s) 20
XspI CTAG 1 cut(s) 87
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.