AT5G56260

Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0001631
Physical Location & Seq
Reverse (-)
22775189 .. 22777355
2167 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G56260.3

Sequence Viewer

Length: 501 bp
ATGGCTGCATTTGCAACGGCAGAAGCGTGTGACAGCAACGCAGAACTAATATCAAATGGAGACTTACGCGCTCTTCACCCAATCTTCAAGATCTATGGCCAAAGAAGATGCTTCTCAGGACCAATCGTGACTCTCAAGGTCTTTGAAGACAATGTCCTCGTCAGAAACCAACTAGAAACGAAAGGAGAAGGCGGAGTCTTAGTTATAGACGGTGGTGGAAGCATGAGATGCGCGCTTGTTGGAGGAAACCTCGGACAGTTAGCTCAGAACAACGGGTGGTCGGGGATTGTTGTGAATGGATGCGTTAGAGATGTGGATGAGATCAATGACTGCGATGTTGGGGTCAGGGCATTGGGATCTAACCCGTTGAAATCTACTAAGAAAGGTCATGGTGAGAAGAATGTGCCGGTTCATATTGGAGGAACTTTGATTAGAGATGGAGAGTGGCTATATGCTGATAGTGATGGTATCTTGATCTCCAAGACCGAACTCTCTGTTTGA
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
RraA-like

Protein Analysis

166

Amino Acids

17.57

Weight (kDa)

5.34

Isoelectric Point (pI)

21.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RraA-like PF03737 39 - 191 5.6e-46 Aldolase/RraA
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 69, 233
AciI CCGC 1 cut(s) 192
AclWI GGATC 1 cut(s) 364
AcoI YGGCCR 1 cut(s) 97
AgsI TTSAA 3 cut(s) 88, 146, 370
AluBI AGCT 1 cut(s) 263
AluI AGCT 1 cut(s) 263
Alw26I GTCTC 1 cut(s) 54
AlwI GGATC 1 cut(s) 364
AoxI GGCC 1 cut(s) 97
ApeKI GCWGC 1 cut(s) 5
AspLEI GCGC 3 cut(s) 71, 233, 235
AspS9I GGNCC 1 cut(s) 119
AsuHPI GGTGA 2 cut(s) 68, 404
AvaII GGWCC 1 cut(s) 119
BalI TGGCCA 1 cut(s) 99
BbsI GAAGAC 1 cut(s) 153
BccI CCATC 2 cut(s) 431, 458
BceAI ACGGC 1 cut(s) 33
BcoDI GTCTC 1 cut(s) 54
BfaI CTAG 1 cut(s) 173
BglII AGATCT 1 cut(s) 90
BisI GCNGC 1 cut(s) 6
BlsI GCNGC 1 cut(s) 7
Bme18I GGWCC 1 cut(s) 119
BmgT120I GGNCC 1 cut(s) 119
BmsI GCATC 3 cut(s) 98, 218, 290
BpiI GAAGAC 1 cut(s) 153
BplI GAGNNNNNCTC 2 cut(s) 234, 266
BpuEI CTTGAG 1 cut(s) 119
BsaJI CCNNGG 1 cut(s) 250
BsaXI ACNNNNNCTCC 2 cut(s) 186, 216
Bse118I RCCGGY 1 cut(s) 406
BseDI CCNNGG 1 cut(s) 250
BseGI GGATG 2 cut(s) 305, 322
BseMII CTCAG 2 cut(s) 129, 278
BsePI GCGCGC 1 cut(s) 231
Bsh1236I CGCG 2 cut(s) 69, 233
BshFI GGCC 1 cut(s) 99
BsiSI CCGG 1 cut(s) 407
BsmAI GTCTC 1 cut(s) 54
BsnI GGCC 1 cut(s) 99
Bsp143I GATC 4 cut(s) 90, 321, 356, 474
BspACI CCGC 1 cut(s) 192
BspANI GGCC 1 cut(s) 99
BspCNI CTCAG 2 cut(s) 128, 277
BspFNI CGCG 2 cut(s) 69, 233
BspPI GGATC 1 cut(s) 364
BspQI GCTCTTC 1 cut(s) 78
BsrFI RCCGGY 1 cut(s) 406
BssAI RCCGGY 1 cut(s) 406
BssECI CCNNGG 1 cut(s) 250
BssHII GCGCGC 1 cut(s) 231
BssMI GATC 4 cut(s) 90, 321, 356, 474
Bst4CI ACNGT 2 cut(s) 212, 258
Bst6I CTCTTC 1 cut(s) 78
BstAPI GCANNNNNTGC 1 cut(s) 228
BstC8I GCNNGC 1 cut(s) 233
BstDEI CTNAG 4 cut(s) 115, 199, 264, 378
BstF5I GGATG 2 cut(s) 305, 322
BstFNI CGCG 2 cut(s) 69, 233
BstHHI GCGC 3 cut(s) 71, 233, 235
BstKTI GATC 4 cut(s) 93, 324, 359, 477
BstMAI GTCTC 1 cut(s) 54
BstMBI GATC 4 cut(s) 90, 321, 356, 474
BstMWI GCNNNNNNNGC 2 cut(s) 11, 228
BstUI CGCG 2 cut(s) 69, 233
BstV2I GAAGAC 1 cut(s) 153
BstX2I RGATCY 2 cut(s) 90, 356
BstYI RGATCY 2 cut(s) 90, 356
BsuRI GGCC 1 cut(s) 99
BtgZI GCGATG 1 cut(s) 348
BtsCI GGATG 2 cut(s) 305, 322
Cac8I GCNNGC 1 cut(s) 233
CfoI GCGC 3 cut(s) 71, 233, 235
Cfr10I RCCGGY 1 cut(s) 406
Cfr13I GGNCC 1 cut(s) 119
CviAII CATG 2 cut(s) 223, 389
CviJI RGCY 4 cut(s) 5, 99, 263, 448
CviKI_1 RGCY 4 cut(s) 5, 99, 263, 448
DdeI CTNAG 4 cut(s) 115, 199, 264, 378
DpnI GATC 4 cut(s) 92, 323, 358, 476
DpnII GATC 4 cut(s) 90, 321, 356, 474
EaeI YGGCCR 1 cut(s) 97
Eam1104I CTCTTC 1 cut(s) 78
EarI CTCTTC 1 cut(s) 78
EciI GGCGGA 1 cut(s) 207
Eco47I GGWCC 1 cut(s) 119
FaeI CATG 2 cut(s) 226, 392
FaiI YATR 7 cut(s) 96, 206, 224, 390, 414, 451, 453
FatI CATG 2 cut(s) 222, 388
Fnu4HI GCNGC 1 cut(s) 6
FokI GGATG 2 cut(s) 312, 329
Fsp4HI GCNGC 1 cut(s) 6
FspBI CTAG 1 cut(s) 173
GlaI GCGC 3 cut(s) 70, 232, 234
GluI GCNGC 1 cut(s) 6
HaeIII GGCC 1 cut(s) 99
HapII CCGG 1 cut(s) 407
HhaI GCGC 3 cut(s) 71, 233, 235
Hin1II CATG 2 cut(s) 226, 392
Hin6I GCGC 3 cut(s) 69, 231, 233
HinP1I GCGC 3 cut(s) 69, 231, 233
HinfI GANTC 2 cut(s) 130, 195
HpaII CCGG 1 cut(s) 407
HphI GGTGA 2 cut(s) 68, 404
Hpy188I TCNGA 3 cut(s) 164, 254, 267
Hpy188III TCNNGA 4 cut(s) 88, 117, 127, 472
HpyAV CCTTC 1 cut(s) 182
HpyCH4III ACNGT 2 cut(s) 212, 258
HpyCH4V TGCA 2 cut(s) 8, 14
HpyF10VI GCNNNNNNNGC 2 cut(s) 11, 228
HpyF3I CTNAG 4 cut(s) 115, 199, 264, 378
Hsp92II CATG 2 cut(s) 226, 392
HspAI GCGC 3 cut(s) 69, 231, 233
Kzo9I GATC 4 cut(s) 90, 321, 356, 474
LguI GCTCTTC 1 cut(s) 78
LpnPI CCDG 3 cut(s) 102, 331, 420
LweI GCATC 3 cut(s) 98, 218, 290
MaeI CTAG 1 cut(s) 173
MaeIII GTNAC 2 cut(s) 29, 127
MalI GATC 4 cut(s) 92, 323, 358, 476
MboI GATC 4 cut(s) 90, 321, 356, 474
MboII GAAGA 5 cut(s) 65, 76, 117, 158, 409
MflI RGATCY 2 cut(s) 90, 356
MlsI TGGCCA 1 cut(s) 99
MluNI TGGCCA 1 cut(s) 99
MlyI GAGTC 2 cut(s) 124, 204
MmeI TCCRAC 1 cut(s) 220
MnlI CCTC 4 cut(s) 167, 236, 260, 413
Mox20I TGGCCA 1 cut(s) 99
MscI TGGCCA 1 cut(s) 99
Msp20I TGGCCA 1 cut(s) 99
MspI CCGG 1 cut(s) 407
MvnI CGCG 2 cut(s) 69, 233
MwoI GCNNNNNNNGC 2 cut(s) 11, 228
NdeII GATC 4 cut(s) 90, 321, 356, 474
NlaIII CATG 2 cut(s) 226, 392
NmuCI GTSAC 2 cut(s) 29, 127
PauI GCGCGC 1 cut(s) 231
PciSI GCTCTTC 1 cut(s) 78
PcsI WCGNNNNNNNCGW 1 cut(s) 23
PflFI GACNNNGTC 1 cut(s) 152
PkrI GCNGC 1 cut(s) 7
PleI GAGTC 2 cut(s) 124, 203
PpsI GAGTC 2 cut(s) 124, 203
PspPI GGNCC 1 cut(s) 119
PsuI RGATCY 2 cut(s) 90, 356
PsyI GACNNNGTC 1 cut(s) 152
PteI GCGCGC 1 cut(s) 231
SapI GCTCTTC 1 cut(s) 78
SatI GCNGC 1 cut(s) 6
Sau3AI GATC 4 cut(s) 90, 321, 356, 474
Sau96I GGNCC 1 cut(s) 119
SchI GAGTC 2 cut(s) 124, 204
SetI ASST 4 cut(s) 141, 252, 265, 388
SfaNI GCATC 3 cut(s) 98, 218, 290
SinI GGWCC 1 cut(s) 119
SmlI CTYRAG 1 cut(s) 134
SmoI CTYRAG 1 cut(s) 134
SsiI CCGC 1 cut(s) 192
SspMI CTAG 1 cut(s) 173
TaaI ACNGT 2 cut(s) 212, 258
TaqII GACCGA 1 cut(s) 500
TseFI GTSAC 2 cut(s) 29, 127
TseI GCWGC 1 cut(s) 5
Tsp45I GTSAC 2 cut(s) 29, 127
TspDTI ATGAA 1 cut(s) 401
Tth111I GACNNNGTC 1 cut(s) 152
VpaK11BI GGWCC 1 cut(s) 119
XspI CTAG 1 cut(s) 173
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.