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Status
Public on May 15, 2013
Title
[P-putidaa530009N] Helmholtz Centre for Infection Research Pseudomonas putida 8K array
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Pseudomonas putida KT2440
Manufacturer
Affymetrix
Manufacture protocol
High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. For details see the publication under DOI: 10.1007/s00253-007-0914-z
Description
The microarrays includes 7,781 probe sets: 5,338 representing 5,350 annotated genes or open reading frames (orfs), and 2,443 targeting intergenic regions.
Submission date
Nov 15, 2010
Last update date
May 15, 2013
Contact name
Jacek Puchałka
Phone
00498951607488
Organization name
Munich University Hospital
Department
University Children's Hospital
Lab
Klein Lab
Street address
Lindwurmstrasse 2a
City
Munich
ZIP/Postal code
80337
Country
Germany
Samples (8)
GSM623357 , GSM623358 , GSM623359 , GSM623360 , GSM623361 , GSM623362
Series (1)
GSE25329
Production of cis, cis-muconate from benzoate at high rate and yield by a mutant of P. putida KT2440
Data table header descriptions
ID
GB_ACC
Identifier of the source sequence (GenBank or SGD)
GI
ORF
ORF Name
SPOT_ID
Description
Sequence Type
gene_name
plasmid
evidence
Data table
ID
GB_ACC
GI
ORF
SPOT_ID
Description
Sequence Type
gene_name
plasmid
evidence
AFFX-Athal_actin_at
U37281.1
A. thaliana GEN=actin-2 DB_XREF=gb:U37281.1 NOTE=SIF corresponding to nucleotides 40-1597 of gb:U37281.1 DEF=Arabidopsis thaliana actin-2 mRNA, complete cds.
Control Sequence
AFFX-Athal_GAPDH_at
M64116.1
A. thaliana GEN=GapC DB_XREF=gb:M64116.1 NOTE=SIF corresponding to nucleotides 127-1205 of gb:M64116.1 DEF=Arabidopsis thaliana glyceraldehyde 3-phosphate dehydrogenase C subunit (GapC) gene, complete cds.
Control Sequence
AFFX-Athal_ubq_at
U84969.1
A. thaliana GEN=UBQ11 DB_XREF=gb:U84969.1 NOTE=SIF corresponding to nucleotides 56-1099 of gb:U84969.1 DEF=Arabidopsis thaliana ubiquitin (UBQ11) gene, complete cds.
Control Sequence
AFFX-BioB-3_at
J04423.1
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2755-3052 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioB-5_at
J04423.1
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2032-2305 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioB-M_at
J04423.1
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2482-2739 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioC-3_at
J04423.1
E. coli GEN=bioC DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4626-4878 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioC-5_at
J04423.1
E. coli GEN=bioC DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4218-4566 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioDn-3_at
J04423.1
E. coli GEN=bioD DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 5286-5570 of gb:J04423.1, not 100% identical DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-BioDn-5_at
J04423.1
E. coli GEN=bioD DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4980-5256 of gb:J04423.1, not 100% identical DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
Control Sequence
AFFX-Bsubtilis_dapB_at
L38424.1
B. subtilis GEN=dapB DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 1375-1954 of gb:L38424.1 DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
Control Sequence
AFFX-Bsubtilis_lys_at
X17013.1
B. subtilis GEN=lys DB_XREF=gb:X17013.1 NOTE=SIF corresponding to nucleotides 448-1332 of gb:X17013.1 DEF=Bacillus subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20).
Control Sequence
AFFX-Bsubtilis_pheB_at
M24537.1
B. subtilis GEN=pheB DB_XREF=gb:M24537.1 NOTE=SIF corresponding to nucleotides 2039-2364 of gb:M24537.1 DEF=Bacillus subtillis sporulation protein (spoOB), GTP-binding protein (obg), phenylalanine biosynthesis associated protein (pheB), and monofunctional prephenate dehydratase (pheA) genes, complete cds.
Control Sequence
AFFX-Bsubtilis_thrC_at
X04603.1
B. subtilis GEN=thrC DB_XREF=gb:X04603.1 NOTE=SIF corresponding to nucleotides 310-1223 of gb:X04603.1 DEF=B. subtilis thrB and thrC genes for homoserine kinase and threonine synthase (EC 2.7.1.39 and EC 4.2.99.2, respectively).
Control Sequence
AFFX-Bsubtilis_trpD_at
K01391.1
B. subtilis GEN=TrpD DB_XREF=gb:K01391.1 NOTE=SIF corresponding to nucleotides 2149-3118 of gb:K01391.1 DEF=B.subtilis tryptophan (trp) operon, complete cds.
Control Sequence
AFFX-CreX-3_at
X03453.1
Bacteriophage P1 GEN=cre DB_XREF=gb:X03453.1 NOTE=SIF corresponding to nucleotides 1089-1495 of gb:X03453.1 DEF=Bacteriophage P1 cre gene for recombinase protein.
Control Sequence
AFFX-CreX-5_at
X03453.1
Bacteriophage P1 GEN=cre DB_XREF=gb:X03453.1 NOTE=SIF corresponding to nucleotides 513-1047 of gb:X03453.1 DEF=Bacteriophage P1 cre gene for recombinase protein.
Control Sequence
AFFX-DapX-3_at
L38424.1
B. subtilis GEN=jojG DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 2684-3130 of gb:L38424.1 DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
Control Sequence
AFFX-DapX-5_at
L38424.1
B. subtilis GEN=dapB DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 1428-1926 of gb:L38424.1 DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
Control Sequence
AFFX-DapX-M_at
L38424.1
B. subtilis GEN=dapB, jojF DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 2020-2580 of gb:L38424.1, not 100% identical DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
Control Sequence
Total number of rows: 8173 Table truncated, full table size 1114 Kbytes .
Supplementary file
Size
Download
File type/resource
GPL11207_P-putidaa530009N.cdf.gz
4.1 Mb
(ftp) (http)
CDF
GPL11207_P-putidaa530009N.gin.gz
196.7 Kb
(ftp) (http)
GIN
GPL11207_P-putidaa530009N.psi.gz
47.0 Kb
(ftp) (http)
PSI