AT5G09960

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008656
Physical Location & Seq
Forward (+)
3106302 .. 3107904
1603 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G09960.1

Sequence Viewer

Length: 339 bp
ATGGAAGACGATCGAAAAGAGAAGAACACTCCGTGGCTATCAGTGCCACAGTTTGGTGATTGGGACCAAAAAGGAGGAGGAACAATGCCTGATTACTCTATGGATTTCACTAAGATTAGAGAGATGAGGAAACAAAACAAGAGAGACCCTTCTCGAGCCAGTTTAGGCAATGAGGAAGAGCTCATTAAGCCACCCGAGTCAGCAACATCAACTGCTGAGCTTACCACGGTCCAAAGTGAAAACCAACGAGAGTTCTCTCCCAGCCACCATCATCAACCACATTCTCCTTCTACGAGGAGAAGTATGTTCAGCTGCTTCAACTGCTGCGTTAAAGCTTGA
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

112

Amino Acids

12.88

Weight (kDa)

6.41

Isoelectric Point (pI)

63.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 13 - 44 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

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 53
AdeI CACNNNGTG 1 cut(s) 33
AfiI CCNNNNNNNGG 1 cut(s) 53
AgsI TTSAA 1 cut(s) 319
AluBI AGCT 4 cut(s) 181, 220, 312, 335
AluI AGCT 4 cut(s) 181, 220, 312, 335
Alw21I GWGCWC 1 cut(s) 183
Alw26I GTCTC 1 cut(s) 138
Ama87I CYCGRG 2 cut(s) 153, 194
ApeKI GCWGC 2 cut(s) 312, 324
AspS9I GGNCC 2 cut(s) 64, 229
AsuHPI GGTGA 1 cut(s) 68
AvaI CYCGRG 2 cut(s) 153, 194
AvaII GGWCC 2 cut(s) 64, 229
BanII GRGCYC 1 cut(s) 183
BbsI GAAGAC 1 cut(s) 12
Bbv12I GWGCWC 1 cut(s) 183
BbvI GCAGC 2 cut(s) 299, 311
BccI CCATC 1 cut(s) 276
BcoDI GTCTC 1 cut(s) 138
BisI GCNGC 2 cut(s) 313, 325
BlpI GCTNAGC 1 cut(s) 216
BlsI GCNGC 2 cut(s) 314, 326
Bme18I GGWCC 2 cut(s) 64, 229
BmeT110I CYCGRG 2 cut(s) 153, 194
BmgT120I GGNCC 2 cut(s) 64, 229
BmiI GGNNCC 1 cut(s) 65
BpiI GAAGAC 1 cut(s) 12
Bpu1102I GCTNAGC 1 cut(s) 216
BsaI GGTCTC 1 cut(s) 138
BsaJI CCNNGG 2 cut(s) 32, 225
Bsc4I CCNNNNNNNGG 1 cut(s) 53
Bse1I ACTGG 1 cut(s) 159
Bse3DI GCAATG 1 cut(s) 175
BseDI CCNNGG 2 cut(s) 32, 225
BseLI CCNNNNNNNGG 1 cut(s) 53
BseMI GCAATG 1 cut(s) 175
BseMII CTCAG 1 cut(s) 207
BseNI ACTGG 1 cut(s) 159
BseRI GAGGAG 2 cut(s) 90, 310
BseXI GCAGC 2 cut(s) 299, 311
BseYI CCCAGC 1 cut(s) 260
Bsh1285I CGRYCG 1 cut(s) 13
BsiEI CGRYCG 1 cut(s) 13
BsiHKAI GWGCWC 1 cut(s) 183
BsiHKCI CYCGRG 2 cut(s) 153, 194
BslFI GGGAC 1 cut(s) 77
BslI CCNNNNNNNGG 1 cut(s) 53
BsmAI GTCTC 1 cut(s) 138
BsmFI GGGAC 1 cut(s) 77
Bso31I GGTCTC 1 cut(s) 138
BsoBI CYCGRG 2 cut(s) 153, 194
Bsp1286I GDGCHC 1 cut(s) 183
Bsp143I GATC 1 cut(s) 10
Bsp1720I GCTNAGC 1 cut(s) 216
BspCNI CTCAG 1 cut(s) 208
BspLI GGNNCC 1 cut(s) 65
BspQI GCTCTTC 1 cut(s) 171
BspTNI GGTCTC 1 cut(s) 138
BsrDI GCAATG 1 cut(s) 175
BsrI ACTGG 1 cut(s) 159
BssECI CCNNGG 2 cut(s) 32, 225
BssMI GATC 1 cut(s) 10
Bst4CI ACNGT 2 cut(s) 51, 229
Bst6I CTCTTC 1 cut(s) 171
BstDEI CTNAG 2 cut(s) 111, 216
BstDSI CCRYGG 2 cut(s) 32, 225
BstKTI GATC 1 cut(s) 13
BstMAI GTCTC 1 cut(s) 138
BstMBI GATC 1 cut(s) 10
BstMCI CGRYCG 1 cut(s) 13
BstMWI GCNNNNNNNGC 3 cut(s) 43, 187, 321
BstV1I GCAGC 2 cut(s) 299, 311
BstV2I GAAGAC 1 cut(s) 12
BtgI CCRYGG 2 cut(s) 32, 225
BtsIMutI CAGTG 1 cut(s) 48
Cfr13I GGNCC 2 cut(s) 64, 229
CviJI RGCY 8 cut(s) 37, 158, 181, 190, 220, 264, 312, 335
CviKI_1 RGCY 8 cut(s) 37, 158, 181, 190, 220, 264, 312, 335
DdeI CTNAG 2 cut(s) 111, 216
DpnI GATC 1 cut(s) 12
DpnII GATC 1 cut(s) 10
DraIII CACNNNGTG 1 cut(s) 33
Eam1104I CTCTTC 1 cut(s) 171
EarI CTCTTC 1 cut(s) 171
Ecl136II GAGCTC 1 cut(s) 181
Eco24I GRGCYC 1 cut(s) 183
Eco31I GGTCTC 1 cut(s) 138
Eco47I GGWCC 2 cut(s) 64, 229
Eco53kI GAGCTC 1 cut(s) 181
Eco88I CYCGRG 2 cut(s) 153, 194
EcoICRI GAGCTC 1 cut(s) 181
EcoT38I GRGCYC 1 cut(s) 183
FaiI YATR 2 cut(s) 101, 305
FaqI GGGAC 1 cut(s) 77
Fnu4HI GCNGC 2 cut(s) 313, 325
FriOI GRGCYC 1 cut(s) 183
Fsp4HI GCNGC 2 cut(s) 313, 325
GluI GCNGC 2 cut(s) 313, 325
GsaI CCCAGC 1 cut(s) 264
HindIII AAGCTT 1 cut(s) 333
HinfI GANTC 1 cut(s) 197
HphI GGTGA 1 cut(s) 68
Hpy188III TCNNGA 1 cut(s) 153
HpyAV CCTTC 2 cut(s) 159, 297
HpyCH4III ACNGT 2 cut(s) 51, 229
HpyF10VI GCNNNNNNNGC 3 cut(s) 43, 187, 321
HpyF3I CTNAG 2 cut(s) 111, 216
Kzo9I GATC 1 cut(s) 10
LguI GCTCTTC 1 cut(s) 171
LpnPI CCDG 3 cut(s) 102, 172, 274
Lsp1109I GCAGC 2 cut(s) 299, 311
MalI GATC 1 cut(s) 12
MboI GATC 1 cut(s) 10
MboII GAAGA 3 cut(s) 17, 34, 188
MhlI GDGCHC 1 cut(s) 183
MlyI GAGTC 1 cut(s) 206
MnlI CCTC 5 cut(s) 68, 71, 120, 166, 288
MseI TTAA 2 cut(s) 186, 330
MspA1I CMGCKG 1 cut(s) 312
MwoI GCNNNNNNNGC 3 cut(s) 43, 187, 321
NdeII GATC 1 cut(s) 10
NlaIV GGNNCC 1 cut(s) 65
PaeR7I CTCGAG 1 cut(s) 153
PciSI GCTCTTC 1 cut(s) 171
PflMI CCANNNNNTGG 1 cut(s) 53
PkrI GCNGC 2 cut(s) 314, 326
Ple19I CGATCG 1 cut(s) 13
PleI GAGTC 1 cut(s) 205
PpsI GAGTC 1 cut(s) 205
Psp124BI GAGCTC 1 cut(s) 183
PspFI CCCAGC 1 cut(s) 260
PspN4I GGNNCC 1 cut(s) 65
PspPI GGNCC 2 cut(s) 64, 229
PvuI CGATCG 1 cut(s) 13
PvuII CAGCTG 1 cut(s) 312
SacI GAGCTC 1 cut(s) 183
SapI GCTCTTC 1 cut(s) 171
SaqAI TTAA 2 cut(s) 186, 330
SatI GCNGC 2 cut(s) 313, 325
Sau3AI GATC 1 cut(s) 10
Sau96I GGNCC 2 cut(s) 64, 229
SchI GAGTC 1 cut(s) 206
SduI GDGCHC 1 cut(s) 183
SetI ASST 4 cut(s) 183, 222, 314, 337
Sfr274I CTCGAG 1 cut(s) 153
SinI GGWCC 2 cut(s) 64, 229
SlaI CTCGAG 1 cut(s) 153
SmlI CTYRAG 1 cut(s) 153
SmoI CTYRAG 1 cut(s) 153
SstI GAGCTC 1 cut(s) 183
TaaI ACNGT 2 cut(s) 51, 229
TaqI TCGA 2 cut(s) 13, 154
Tru1I TTAA 2 cut(s) 186, 330
Tru9I TTAA 2 cut(s) 186, 330
TscAI CASTG 1 cut(s) 48
TseI GCWGC 2 cut(s) 312, 324
TspGWI ACGGA 1 cut(s) 21
TspRI CASTG 1 cut(s) 48
Van91I CCANNNNNTGG 1 cut(s) 53
VpaK11BI GGWCC 2 cut(s) 64, 229
XhoI CTCGAG 1 cut(s) 153
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.