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Platform GPL8738 Query DataSets for GPL8738
Status Public on Jul 10, 2009
Title JCVI PFGRC Salmonella typhimurium 13K v6 array designed primarily based on strain 14028
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Salmonella enterica subsp. enterica serovar Typhimurium
Manufacturer JCVI PFGRC
Manufacture protocol 6QST, with arrayer GENETIX, machine cycles 0, pen id 0, pen cycles 0, operator 0, humidity control 0, humidity set point0.000
Coating aminosilane
 
Description This set includes 5936 oligonucleotides, has 13872 spots distributed in 48 blocks.
 
Web link http://pfgrc.jcvi.org/descriptionPages.shtml
Submission date Jun 18, 2009
Last update date Jul 10, 2009
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 14028 Target map of strain 14028
Strain CT18 Target map of strain CT18
Strain LT2(SGSC1412) Target map of strain LT2(SGSC1412)
Strain Ty2 Target map of strain Ty2
ORF Entrez Gene locus tag
SPOT_ID controls, ORFs found in JCVI internal db

Data table
ID SEQUENCE GC% Internal Repeat Score Self-Annealing Score Primary Strain Primary Target Common Name of Primary Target Gene Symbol Strain 14028 Strain CT18 Strain LT2(SGSC1412) Strain Ty2 ORF SPOT_ID
6QST00001_A_1 ATGAATTTAGTTAAAATTATTTATGAATTAAAACTCCCTAAACGTTTCCTCCAGAAAAATAAATACATTT 21.43 32 118 CT18 STY0293 hypothetical protein STY0293::70::100.0::1.5E-10::+ t2592::70::100.0::1.5E-10::+ STY0293
6QST00001_A_10 ATACTATCGATCTTGGCAACAACGAATCTCTGGTATGTGGCGTGTTTCCCAATCAGGACGGCACATTCAC 47.14 29 78 CT18 STY2067 hypothetical protein STY2067::70::100.0::7.0E-11::+ STY2067
6QST00001_A_11 TAACCGGCATCGTGCTGGTTTTCTTACTTTTAGGTTATCTGGTCTATGCCCTGATTAATGCGGAGGCGTT 45.71 29 78 14028 ORF00733 K+-transporting ATPase, F subunit, putative ORF00733::70::100.0::5.5E-11::+ STM0707::70::100.0::1.2E-10::+ JCVI_internalDB_ORF00733
6QST00001_A_12 CGCCAGCAGCTTGATGCCGGGCGGATGACCACCACAAATTTTGCAGACGGCGACAGCGTAAAAGATAAAA 52.86 29 67 CT18 STY4810 hypothetical protein STY4810::70::100.0::7.0E-11::+ t4506::70::100.0::7.0E-11::+ STY4810
6QST00001_A_13 TATTTACTGTGGTTTGTCGGCATTCTGCTGATGTGCTCACTGTCGACACTGGCGCTGGTATGGCTTGAGT 50.0 32 81 LT2(SGSC1412) STM1794 putative periplasmic protein STM1794::70::100.0::1.2E-10::+ STM1794
6QST00001_A_14 TTCTGTGGGCCGTTTTACTCATCGTCACTATTTTATCATTCATTCATCATATGACCAATTCGCTGACTTT 37.14 30 78 14028 ORF01973 putative inner membrane protein ORF01973::70::100.0::7.1E-11::+ STY2001::70::95.71428::1.1E-9::+ STM1863::70::100.0::6.8E-11::+ t1015::70::95.71428::1.1E-9::+ JCVI_internalDB_ORF01973
6QST00001_A_15 TCACCATTCTTATCCTGAAACTCATTGTTGCAGCACTGCAACTGCTTGATGCTGTTCTGAAATACCTTAA 40.0 30 88 Obsolete Obsolete Obsolete --Obsolete
6QST00001_A_16 AACACCCTTCTCTATCTCAACGGCTCGCAACTGGCGCGCAAAGAAAAGGAATATTGTTCCAGGCAGTGCG 51.43 30 74 14028 ORF02834 conserved hypothetical protein ORF02834::70::100.0::6.8E-11::+,ORF01010::70::94.28571::2.9E-9::+ STM2630::70::100.0::6.8E-11::+,STM1010.1n::70::94.28571::2.9E-9::+ JCVI_internalDB_ORF02834
6QST00001_A_17 ATTGTCACCACTGCTCAATACTATGGCATAAAAACCGAAGAAAACGGTACTGTTCACTGTCTCGTTTCAT 40.0 30 73 CT18 STY1874a hypothetical protein STY1874a::70::100.0::1.2E-10::+ t1125::70::100.0::1.2E-10::+ STY1874a
6QST00001_A_18 TTATCCTTAATATCCTGCTGACATTACTCGGATATATTCCGGGGCTTATCCACGCATTTTGGGTTCAGAT 41.43 31 87 14028 ORF02955 conserved domain protein ORF02955::70::100.0::6.8E-11::+ STY2916::70::98.57143::1.7E-10::+ STM2796::70::100.0::6.8E-11::+ t2691::70::98.57143::1.7E-10::+ JCVI_internalDB_ORF02955
6QST00001_A_19 ATTCCTGTTTACTGACGAAAAGTGCGCCAGAAAAGCGTATTATAATTTATCCATCACTGACATATGTGAT 35.71 30 75 CT18 STY1874b hypothetical protein STY1874b::70::100.0::1.2E-10::+ t1124::70::100.0::1.2E-10::+ STY1874b
6QST00001_A_2 TTGATGGTTCAGTAATTGGTATGTGCGCGCTACCCAACGGCAAACGTTGTAGCGAACAGTCGCTTGCCGC 52.86 30 94 14028 ORF01745 putative cytoplasmic protein ORF01745::70::100.0::4.1E-11::+ STY1420::70::100.0::7.0E-11::+ STM1649::70::100.0::7.0E-11::+ t1552::70::100.0::7.0E-11::+ JCVI_internalDB_ORF01745
6QST00001_A_20 ACACAATAGTGGGTTTCACTGGCAGCACACAATCAAATCTGACAGTCGGCTTCGAGCGAGGTGCGGACAT 51.43 31 80 CT18 STY2750 hypothetical protein STY2750::70::100.0::6.8E-11::+ t0348::70::100.0::6.8E-11::+ STY2750
6QST00001_A_21 CTATATTCCTCACGCGCCAGCAAAATCTGGCGTCGGGATTGGCGTCCCGGATGTTTACGGAGCGATATGA 54.29 28 108 CT18 STY2049 hypothetical protein STY2049::70::100.0::1.1E-10::+ STY2049
6QST00001_A_22 AGTCTGGCTTGACGAGTTCTGCTATTGCAACATGGAGCAACAGCGCACACAGCCTGAAGGCCGTGGCTAA 54.29 28 111 Obsolete Obsolete Obsolete --Obsolete
6QST00001_A_23 TGAACCCTTCCATGCTGAACGCGACCCTACTAACAACTGCGCCATCTCGCGCAGTGGTCGTCGTGCGTGT 58.57 30 111 CT18 STY3985 ilvB operon leader peptide ivbL STY3985::70::100.0::1.1E-10::+ STM3797::70::100.0::1.1E-10::+ t3721::70::100.0::1.1E-10::+ STY3985
6QST00001_A_24 AATCTGGCCTCCAGGCTGGCTTAAATATGCGCACATGACAATACAACCGGAAAATTTACAAAACCCATAA 41.43 30 77 14028 ORF02114 putative cytoplasmic protein ORF02114::70::100.0::6.7E-11::+ STY2207::70::95.71428::1.1E-9::+ STM1999::70::100.0::6.7E-11::+ t0879::70::95.71428::1.1E-9::+ JCVI_internalDB_ORF02114
6QST00001_A_3 ATGAGCTTACAGGAGTTGTTTGAGCTCGTCCTCTGTGTCCACTTGGTCTGCCAGATGCTCTACAGGGAGT 51.43 32 72 Ty2 t2947 hypothetical protein t2947::70::100.0::1.5E-10::+ t2947
6QST00001_A_4 TTTATTTTGTGGGTAACCCCTCCGCTTTTTGATCAAAAAACAACCACTGCTATTTTTAGCGTAGCTTATG 37.14 30 102 Obsolete Obsolete Obsolete STY2156::70::98.57143::1.8E-10::+ t0928::70::98.57143::1.8E-10::+ --Obsolete
6QST00001_A_5 ATGCTCAGAAAATTTCAATACTTGTTTCTGTGGCATTTACTCCTTCCGTGCATTGTAAGTGCAGGCAGAA 40.0 29 86 LT2(SGSC1412) PSLT005 plasmid replication control protein tap PSLT005::70::100.0::1.4E-10::+ PSLT005

Total number of rows: 6477

Table truncated, full table size 1660 Kbytes.




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