NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Platform GPL10210 Query DataSets for GPL10210
Status Public on Mar 18, 2010
Title JCVI PFGRC Escherichia coli 17K v1 array designed primarily based on strain Sakai
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Escherichia coli
Manufacturer JCVI PFGRC
Manufacture protocol QEH, with arrayer AUSHON, machine cycles 0, pen id 0, pen cycles 0, operator 0, humidity control 0, humidity set point0.000
Coating aminosilane
 
Description This set includes 7644 oligonucleotides, has 17328 spots distributed in 48 blocks.
 
Web link http://pfgrc.jcvi.org/descriptionPages.shtml
Submission date Mar 17, 2010
Last update date Mar 18, 2010
Contact name PFGRC JCVI
E-mail(s) jli@jcvi.org
Phone 3017957840
Organization name J. Craig Venter Institute
Department PFGRC
Street address 9704 Medical Center Drive
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
 

Data table header descriptions
ID Unique identification of each oligo
SEQUENCE Oligo sequence
GC% GC content of the sequence
Internal Repeat Score Internal repeat score
Self-Annealing Score Self-anneal score
Primary Strain The strain of primary target
Primary Target Locus primarily hit by the oligo
Common Name of Primary Target Common name of primary target
Gene Symbol Gene symbol
Strain Sakai Target map of strain Sakai
Strain EDL933 Target map of strain EDL933
Strain EC4115 Target map of strain EC4115
Strain TW14359 Target map of strain TW14359
ORF primary target link in Entrez Gene
SPOT_ID

Data table
ID SEQUENCE GC% Internal Repeat Score Self-Annealing Score Primary Strain Primary Target Common Name of Primary Target Gene Symbol Strain Sakai Strain EDL933 Strain EC4115 Strain TW14359 ORF SPOT_ID
QEH00001_A_10 TAACCGTTGTTGCGACAGGTATCGGCATGGACAAACGTCCTGAAATCACTCTGGTGACCAATAAGCAGGT 48.57 29 81 Sakai ECs0099 cell division protein FtsZ ECs0099::70::100.0::8.7E-11::+ Z0105::70::100.0::8.7E-11::+ ECH74115_0103::70::100.0::8.7E-11::+ ECSP_0098::70::100.0::8.7E-11::+ ECs0099
QEH00001_A_11 GGCTGCGGAAATTACGTTAGTCCCGTCAGTAAAATTACAGATAGGCGATCGTGATAATCGCGGTTATTAC 44.29 32 92 Sakai ECs0005 hypothetical protein ECs0005::70::100.0::4.1E-11::+ Z0005::70::100.0::4.1E-11::+ ECH74115_0006::70::100.0::4.1E-11::+ ECSP_0005::70::100.0::4.1E-11::+ ECs0005
QEH00001_A_12 GCCGGCCAACACCGGGGTCATCTATCGTCGCACCGACTTGAATCCACCGGTAGATTTCCCGGCCGATGCC 62.86 32 122 Sakai ECs0100 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase lpxC ECs0100::70::100.0::6.3E-11::+ Z0106::70::100.0::6.3E-11::+ ECH74115_0104::70::100.0::6.3E-11::+ ECSP_0099::70::100.0::6.3E-11::+ ECs0100
QEH00001_A_13 GGGATCCGTCTTGAGAATACCCGAGGGAAAGATCTGTATCAATTCTGGGGAGATATCATCACCAACAAGC 47.14 29 84 EC4115 ECH74115_0007 hypothetical protein ECs0006::70::98.57143::1.1E-10::+ Z0006::70::98.57143::1.1E-10::+ ECH74115_0007::70::100.0::4.0E-11::+ ECSP_0006::70::100.0::4.0E-11::+ ECH74115_0007
QEH00001_A_14 TGGCAATAACGTGAGTGGAATACTGACGCGCTGGCGACAGTTTGGTAAACGCTACTTCTGGCCGCATCTC 52.86 30 94 EC4115 ECH74115_0105 SecA regulator SecM secM ECs0101::60::100.0::4.3E-9::+ Z0107::60::100.0::4.3E-9::+ ECH74115_0105::70::100.0::2.1E-11::+ ECSP_0100::60::100.0::4.3E-9::+ ECH74115_0105
QEH00001_A_15 AATTTGACTGCCATATTACTGCTCTCGCCTGTGGTTTATACCATTGCCAGTGATTATCTACGCCAGCGTA 44.29 31 85 EC4115 ECH74115_0008 amino acid carrier protein agcS ECs0007::70::98.57143::2.8E-10::+ Z0007::70::98.57143::2.8E-10::+ ECH74115_0008::70::100.0::1.1E-10::+ ECSP_0007::70::100.0::1.1E-10::+ ECH74115_0008
QEH00001_A_16 AAGTTATCATCGTTGACGAACACACCGGTCGTACCATGCAGGGCCGTCGCTGGTCCGATGGTCTGCACCA 57.14 30 96 Sakai ECs0102 preprotein translocase subunit SecA secA ECs0102::70::100.0::1.4E-10::+ Z0108::70::100.0::1.4E-10::+ ECH74115_0106::70::100.0::1.4E-10::+ ECSP_0101::70::100.0::1.4E-10::+ ECs0102
QEH00001_A_17 CTGTTTAAAGAGAAATACTATCATGACGGACAAATTGACCTCCCTTCGTCAGTACACCACCGTAGTGGCC 45.71 29 86 EC4115 ECH74115_0009 transaldolase B tal2 ECH74115_0009::70::100.0::7.4E-11::+ ECH74115_0009
QEH00001_A_18 CGAGAACAATGAAATCTTTATAACGCGTCGCGCAGCAGATGCGCACATGGCGAATAAACTGGAGTTTCCC 48.57 30 119 Sakai ECs0103 nucleoside triphosphate pyrophosphohydrolase ECs0103::70::100.0::3.1E-11::+ Z0109::70::100.0::3.1E-11::+ ECH74115_0107::70::100.0::3.1E-11::+ ECSP_0102::70::100.0::3.1E-11::+ ECs0103
QEH00001_A_19 CGTTGAAACGGCACCAGAAGTGGTTGCTGCATTCAGACCGAAGAGTGCAAGACGCGACGTTAGCGAATAA 51.43 30 87 Sakai ECs0009 molybdenum cofactor biosynthesis protein mogA ECs0009::70::100.0::2.1E-11::+ Z0009::70::100.0::2.1E-11::+ ECH74115_0010::70::100.0::2.1E-11::+ ECSP_0009::70::100.0::2.1E-11::+ ECs0009
QEH00001_A_2 GTGAAGGCGGTATTGACGCATATCCTGTCGACCCGAAAGAAGTTGACGTGACGCAACTGAAGTCGATGGG 52.86 30 79 Sakai ECs0096 D-alanine--D-alanine ligase ddl ECs0096::70::100.0::6.3E-11::+ Z0102::70::100.0::6.3E-11::+ ECH74115_0100::70::100.0::6.3E-11::+ ECSP_0095::70::100.0::6.3E-11::+ ECs0096
QEH00001_A_20 GAAGAAAAACGAATCCCCAGCAGTGGCGATCTTTCCGAAAGCGATGACTGGAGCGAAGAGCCAAAGCAGT 51.43 30 85 Sakai ECs0105 zinc-binding protein ECs0105::70::100.0::6.2E-11::+ Z0111::70::100.0::6.2E-11::+ ECH74115_0108::70::100.0::6.2E-11::+ ECSP_0103::70::100.0::6.2E-11::+ ECs0105
QEH00001_A_21 ACGTAGGTTATTTCGCTCTGGACGGTATTATTCTTGCCATGGGCATTTTCTACGGCGGCATCGCGCAAAT 48.57 30 84 Sakai ECs0010 hypothetical protein ECs0010::70::100.0::2.2E-11::+ Z0010::70::100.0::2.2E-11::+ ECH74115_0011::70::100.0::2.2E-11::+ ECSP_0010::70::100.0::2.2E-11::+ ECs0010
QEH00001_A_22 GTTTTATGCCGCTGGACACTGAAAACGGACAGGTACCGGAACGTCTGGATTTCGAACTGGCCTGTTGCTA 51.43 29 105 Sakai ECs0106 hypothetical protein ECs0106::70::100.0::3.4E-11::+ Z0112::70::100.0::3.4E-11::+ ECH74115_0109::70::100.0::3.4E-11::+ ECSP_0104::70::100.0::3.4E-11::+ ECs0106
QEH00001_A_23 TGAAAAAGGCAAAACTCGCCTCTCCAGCGTACTGATGCGCAACGAACTGTTTAAATCGATGGAAGGACAT 45.71 30 85 Sakai ECs0012 hypothetical protein ECs0012::70::100.0::2.8E-11::+ Z0011::70::100.0::2.8E-11::+ ECH74115_0012::70::100.0::2.8E-11::+ ECSP_0011::70::100.0::2.8E-11::+ ECs0012
QEH00001_A_24 GCATCGGATGTTGCCCGCCTGCACGCACACTATTTGCAGCTTGCGTCGCAGTTTGTCTCACAGGAAAAAC 54.29 30 85 Sakai ECs0107 dephospho-CoA kinase coaE ECs0107::70::100.0::2.0E-11::+ Z0113::70::100.0::2.0E-11::+ ECH74115_0110::70::100.0::2.0E-11::+ ECSP_0105::70::100.0::2.0E-11::+ ECs0107
QEH00001_A_3 GCCCGCACTGTCAGGTGCGGGCTTTTTTCTGTGTTTCCTGTACGCGTCAGCCCGCACCGTTACCTGTGGT 60.0 33 130 EC4115 ECH74115_0001 hypothetical protein ECH74115_0001::70::100.0::5.6E-11::+ ECSP_0001::70::100.0::5.6E-11::+ ECH74115_0001
QEH00001_A_5 CCCGGGGATGAAAGGAATGGTCGGCATGGCGGCGCGCGTCTTTGCTGCAATGTCACGCGCCCGTATTTCC 62.86 30 121 Sakai ECs0002 bifunctional aspartokinase I/homeserine dehydrogenase I thrA ECs0002::70::100.0::1.4E-10::+ Z0002::70::100.0::1.4E-10::+ ECH74115_0003::70::100.0::1.4E-10::+ ECSP_0002::70::100.0::1.4E-10::+ ECs0002
QEH00001_A_6 TTCCTGCTGACCGTTTTAACGACAGTGTTGGTGAGCGGCTGGGTCGTGTTGGGCTGGATGGAAGATGCGC 57.14 29 76 Sakai ECs0097 cell division protein FtsQ ECs0097::70::100.0::5.0E-11::+ Z0103::70::100.0::5.0E-11::+ ECH74115_0101::70::100.0::5.0E-11::+ ECSP_0096::70::100.0::5.0E-11::+ ECs0097
QEH00001_A_7 GGAGATGTAGTCACGGTTGAGTCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGC 52.86 29 80 Sakai ECs0003 homoserine kinase ECs0003::70::100.0::6.5E-11::+ Z0003::70::100.0::6.5E-11::+ ECH74115_0004::70::100.0::6.5E-11::+ ECSP_0003::70::100.0::6.5E-11::+ ECs0003

Total number of rows: 8144

Table truncated, full table size 2374 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap