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Platform GPL15187 Query DataSets for GPL15187
Status Public on Feb 03, 2012
Title NimbleGen-TI272559 Bacteroides fragilis NCTC 9343 385K Expression Array
Technology type in situ oligonucleotide
Distribution commercial
Organism Bacteroides fragilis NCTC 9343
Manufacturer NimbleGen
Manufacture protocol High-density DNA array prepared with Maskless Array Synthesizer technology per manufacturer website .
Catalog number A4433-00-01
 
Description 2006-07-27_TI272559_60mer Catalog design for Bacteroides fragilis NCTC 9343 (ATCC 25285) covering NC_003228, NC_006873.Probes selected for 4231/4231 sequences. Median number of probes/sequence is 18 with an average of 18.00.
Each probe will be replicated 5 times on the chip. Probes are randomly distributed over the surface of the array.
Unused features have been filled with randomly generated probes of comparable GC content.
 
Submission date Feb 03, 2012
Last update date Feb 03, 2012
Organization NimbleGen Systems, Inc.
E-mail(s) [email protected]
Phone 608-218-7600
URL http://www.nimblegen.com/
Street address 504 S. Rosa Road
City Madison
State/province WI
ZIP/Postal code 53719
Country USA
 
Samples (2) GSM870259, GSM870260
Series (2)
GSE35536 Identification of the Bacteroides fragilis EcfO regulon 1
GSE35539 Characterization of the EcfO regulon

Data table header descriptions
ID
SEQ_UNIQUE
SPECIES_CODE
PLASMID
BUILD
FEAT_TYPE
ORF locus_tag from accession NC_003228.3
PT_GI
SECONDARY_NAME
ACCESSION
GI
FUNCTION Function is the geneproduct description from accession NC_003228.3
CHROMOSOME
MAPLOC
DESCRIPTION
SEQ_URL
COMMENTS
DATE_ENTERED
SOURCE_DB

Data table
ID SEQ_UNIQUE SPECIES_CODE PLASMID BUILD FEAT_TYPE ORF PT_GI SECONDARY_NAME ACCESSION GI FUNCTION CHROMOSOME MAPLOC DESCRIPTION SEQ_URL COMMENTS DATE_ENTERED SOURCE_DB
TI272559S000001 1 Bacteroides fragilis 0 512 CDS BF0001 60679598 GI:60679598;GeneID:3288160 NC_003228 60679597 putative SpoU rRNA methylase family protein NC_003228 67-594 Similar to Bacteroides thetaiotaomicron tRNA/rRNA methyltransferase BT3165 SWALL:AAO78271 (EMBL:AE016939) (175 aa) fasta scores: E(): 4.1e-62, 90.85% id in 175 aa, and to Chlorobium tepidum SpoU rRNA methylase family protein CT1255 SWALL:Q8KD02 (EMBL:AE012885) (169 aa) fasta scores: E(): 1.3e-21, 41.66% id in 168 aa, and to Fusobacterium nucleatum 23S rRNA methyltransferase FN1519 SWALL:Q8R6H6 (EMBL:AE010460) (234 aa) fasta scores: E(): 5.6e-11, 35.29% id in 153 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0001 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000002 2 Bacteroides fragilis 0 512 CDS BF0002 60679599 GI:60679599;GeneID:3288027 NC_003228 60679597 putative outer membrane protein NC_003228 749-2218 Similar to Bacteroides thetaiotaomicron outer membrane protein TolC, putative BT0857 SWALL:AAO75964 (EMBL:AE016929) (490 aa) fasta scores: E(): 4.6e-35, 27.45% id in 488 aa, and to Bacteroides thetaiotaomicron outer membrane protein TolC, putative BT0671 SWALL:AAO75778 (EMBL:AE016928) (499 aa) fasta scores: E(): 2.3e-31, 24.54% id in 493 aa, and to Bacteroides thetaiotaomicron putative outer membrane protein OprM precursor BT1530 SWALL:AAO76637 (EMBL:AE016932) (492 aa) fasta scores: E(): 6.2e-28, 24.74% id in 489 aa, and to Neisseria meningitidis putative outer membrane lipoprotein MtrE or NMA1968 SWALL:Q9JT52 (EMBL:AL162757) (467 aa) fasta scores: E(): 4.8e-05, 20.21% id in 371 aa, and to Acinetobacter baumannii AdeC outer membrane protein SWALL:Q93E18 (EMBL:AF370885) (465 aa) fasta scores: E(): 6.3e-05, 20.53% id in 414 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0002 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000003 3 Bacteroides fragilis 0 512 CDS BF0003 60679600 GI:60679600;GeneID:3288161 NC_003228 60679597 hypothetical protein NC_003228 2211-3182 Limited similarity to Bacteroides thetaiotaomicron hypothetical protein BT4283 SWALL:AAO79388 (EMBL:AE016944) (329 aa) fasta scores: E(): 1.5e-08, 29.44% id in 180 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0003 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000004 4 Bacteroides fragilis 0 512 CDS BF0004 60679601 GI:60679601;GeneID:3288162 NC_003228 60679597 putative sugar transferase NC_003228 3196-4035 Similar to Vibrio cholerae sugar transferase SWALL:O34234 (EMBL:Y07786) (337 aa) fasta scores: E(): 1.7e-22, 40.16% id in 239 aa, and to Bacteroides thetaiotaomicron putative glycosyltransferase BT4281 SWALL:AAO79386 (EMBL:AE016944) (277 aa) fasta scores: E(): 4.5e-42, 41.45% id in 275 aa, and to Vibrio cholerae ORF139-19 protein SWALL:P74947 (EMBL:AB012956) (337 aa) fasta scores: E(): 1.5e-22, 39.75% id in 249 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0004 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000005 5 Bacteroides fragilis 0 512 CDS BF0005 60679602 GI:60679602;GeneID:3287994 NC_003228 60679597 hypothetical protein NC_003228 4069-4602 no significant database matches http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0005 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000006 6 Bacteroides fragilis 0 512 CDS BF0006 60679603 GI:60679603;GeneID:3288026 NC_003228 60679597 hypothetical protein NC_003228 4663-6468 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein BT4273 SWALL:AAO79378 (EMBL:AE016944) (519 aa) fasta scores: E(): 6e-13, 23.65% id in 503 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0006 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000007 7 Bacteroides fragilis 0 512 CDS BF0007 60679604 GI:60679604;GeneID:3288163 NC_003228 60679597 hypothetical protein NC_003228 6658-8469 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein BT4273 SWALL:AAO79378 (EMBL:AE016944) (519 aa) fasta scores: E(): 1.1e-15, 26.02% id in 488 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0007 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000008 8 Bacteroides fragilis 0 512 CDS BF0008 60679605 GI:60679605;GeneID:3288164 NC_003228 60679597 putative glycosyltransferase NC_003228 8625-9743 Similar to N-terminus of Bacteroides thetaiotaomicron putative glycosyltransferase BT4280 SWALL:Q89ZU4 (EMBL:AE016944) (577 aa) fasta scores: E(): 8.8e-59, 43.73% id in 375 aa, and to entire protein of Streptococcus thermophilus EPS10P SWALL:Q8GP63 (EMBL:AF454500) (376 aa) fasta scores: E(): 4.2e-21, 27.48% id in 382 aa, and to Thermoanaerobacter tengcongensis predicted glycosyltransferases RfaG2 or TTE0275 SWALL:Q8RCY0 (EMBL:AE013000) (404 aa) fasta scores: E(): 5.7e-09, 25.66% id in 300 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0008 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000009 9 Bacteroides fragilis 0 512 CDS BF0009 60679606 GI:60679606;GeneID:3288165 NC_003228 60679597 putative glycosyltransferase NC_003228 9724-10392 Similar to C-terminus of Bacteroides thetaiotaomicron putative glycosyltransferase BT4280 SWALL:Q89ZU4 (EMBL:AE016944) (577 aa) fasta scores: E(): 1.4e-45, 57.35% id in 204 aa, and to entire Yersinia pestis hypothetical protein YPO1382 or Y2791 SWALL:Q8ZGC1 (EMBL:AJ414148) (224 aa) fasta scores: E(): 0.48, 25.78% id in 190 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0009 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000010 10 Bacteroides fragilis 0 512 CDS BF0010 60679607 GI:60679607;GeneID:3288169 NC_003228 60679597 hypothetical protein NC_003228 10512-11747 Similar to Bacteroides thetaiotaomicron putative hemolysin secretion protein BT4289 SWALL:AAO79394 (EMBL:AE016944) (416 aa) fasta scores: E(): 1.2e-35, 30.69% id in 417 aa, and to Anabaena sp. hypothetical protein ALR1928 SWALL:Q8YVP6 (EMBL:AP003587) (512 aa) fasta scores: E(): 8.4e-09, 24.47% id in 286 aa, and to Xylella fastidiosa colicin V secretion protein XF1216 SWALL:Q9PE12 (EMBL:AE003955) (420 aa) fasta scores: E(): 7.7e-08, 21.15% id in 416 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0010 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000011 11 Bacteroides fragilis 0 512 CDS BF0011 60679608 GI:60679608;GeneID:3288063 NC_003228 60679597 putative ABC transporter ATP-binding protein NC_003228 11752-13935 Similar to Riemerella anatipestifer ABC transporter SWALL:Q9AM85 (EMBL:AF327734) (678 aa) fasta scores: E(): 2.1e-88, 37.46% id in 670 aa, and to Bacteroides thetaiotaomicron ABC transporter ATP-binding protein BT4288 SWALL:AAO79393 (EMBL:AE016944) (741 aa) fasta scores: E(): 1.4e-177, 62.63% id in 728 aa, and to Anabaena sp. ABC transporter ATP-binding protein ALR1927 SWALL:Q8YVP7 (EMBL:AP003587) (1011 aa) fasta scores: E(): 1.6e-58, 32.69% id in 728 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0011 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000012 12 Bacteroides fragilis 0 512 CDS BF0012 60679609 GI:60679609;GeneID:3288170 NC_003228 60679597 hypothetical protein NC_003228 14052-14651 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein BT3166 SWALL:AAO78272 (EMBL:AE016939) (190 aa) fasta scores: E(): 2.9e-56, 77.36% id in 190 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0012 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000013 13 Bacteroides fragilis 0 512 CDS BF0013 60679610 GI:60679610;GeneID:3288008 NC_003228 60679597 hypothetical protein NC_003228 14771-16798 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein BT3167 SWALL:AAO78273 (EMBL:AE016939) (682 aa) fasta scores: E(): 2.7e-177, 60.05% id in 681 aa, and to Chlorobium tepidum hypothetical protein CT0480 SWALL:Q8KF52 (EMBL:AE012824) (667 aa) fasta scores: E(): 6.7e-19, 26.65% id in 664 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0013 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000014 14 Bacteroides fragilis 0 512 CDS BF0014 60679611 GI:60679611;GeneID:3288172 NC_003228 60679597 putative SAM superfamily protein NC_003228 16856-17629 Similar to Bacteroides thetaiotaomicron putative Fe-S oxidoreductase BT3168 SWALL:AAO78274 (EMBL:AE016939) (257 aa) fasta scores: E(): 8.2e-83, 79.76% id in 257 aa, and to Helicobacter pylori hypothetical protein HP0117 SWALL:Y117_HELPY (SWALL:P56080) (308 aa) fasta scores: E(): 1.5e-13, 31.37% id in 255 aa, and to Thermoplasma acidophilum hypothetical protein TA1466 SWALL:Q9HI79 (EMBL:AL445067) (325 aa) fasta scores: E(): 1.6e-13, 32.97% id in 188 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0014 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000015 15 Bacteroides fragilis 0 512 CDS BF0015 60679612 GI:60679612;GeneID:3288171 NC_003228 60679597 hypothetical protein NC_003228 17671-18180 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein BT0585 SWALL:AAO75692 (EMBL:AE016928) (169 aa) fasta scores: E(): 9.3e-45, 65.08% id in 169 aa, and to Clostridium tetani conserved protein CTC01047 SWALL:AAO35630 (EMBL:AE015939) (164 aa) fasta scores: E(): 1.3e-13, 36.07% id in 158 aa, and to Fusobacterium nucleatum hypothetical cytosolic protein FN0320 SWALL:Q8RGH5 (EMBL:AE010544) (180 aa) fasta scores: E(): 6.1e-09, 30.85% id in 175 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0015 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000016 16 Bacteroides fragilis 0 512 CDS BF0016 60679613 GI:60679613;GeneID:3288173 NC_003228 60679597 putative arylsulfatase precursor NC_003228 18198-19811 Similar to Klebsiella pneumoniae arylsulfatase precursor AtsA SWALL:Q9X759 (EMBL:AJ131525) (577 aa) fasta scores: E(): 1.2e-37, 32.13% id in 529 aa, and to Bacteroides thetaiotaomicron arylsulfatase BT4683 SWALL:AAO79788 (EMBL:AE016946) (523 aa) fasta scores: E(): 2.8e-145, 66.93% id in 499 aa, and to Bacteroides thetaiotaomicron arylsulfatase BT3093 SWALL:AAO78199 (EMBL:AE016939) (540 aa) fasta scores: E(): 1.1e-45, 39.32% id in 534 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0016 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000017 17 Bacteroides fragilis 0 512 CDS BF0017 60679614 GI:60679614;GeneID:3288033 NC_003228 60679597 conserved hypothetical iron transport-related transmembrane protein NC_003228 19915-20418 Similar to Bacteroides thetaiotaomicron conserved hypothetical protein, putative iron uptake factor BT2063 SWALL:AAO77170 (EMBL:AE016934) (429 aa) fasta scores: E(): 9e-15, 43.69% id in 119 aa, and to Xanthomonas campestris iron-uptake factor PiuB or XCC3955 SWALL:Q8P3W4 (EMBL:AE012516) (839 aa) fasta scores: E(): 1.9e-09, 38.88% id in 108 aa, and to Bradyrhizobium japonicum protein BLL7967 SWALL:BAC53232 (EMBL:AP005964) (398 aa) fasta scores: E(): 1.9e-09, 38.23% id in 102 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0017 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000018 18 Bacteroides fragilis 0 512 CDS BF0018 60679615 GI:60679615;GeneID:3288174 NC_003228 60679597 putative iron transport receptor protein NC_003228 20542-22956 Similar to Salmonella typhimurium ferrichrome iron receptor FhuA SWALL:O86925 (EMBL:Y14025) (729 aa) fasta scores: E(): 3.2e-30, 24.85% id in 684 aa, and to Anabaena sp. ferrichrome-iron receptor ALR2626 SWALL:Q8YTT7 (EMBL:AP003590) (872 aa) fasta scores: E(): 1.2e-43, 28.55% id in 676 aa, and to Anabaena sp. ferrichrome iron receptor ALL4924 SWALL:Q8YMK9 (EMBL:AP003598) (858 aa) fasta scores: E(): 1.3e-37, 25.97% id in 716 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0018 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000019 19 Bacteroides fragilis 0 512 CDS BF0019 60679616 GI:60679616;GeneID:3288175 NC_003228 60679597 putative sulfate permease transmembrane protein NC_003228 23157-24836 Similar to Bacteroides thetaiotaomicron putative sulfate transporter, permease BT3181 SWALL:AAO78287 (EMBL:AE016939) (559 aa) fasta scores: E(): 8.6e-190, 88.17% id in 558 aa, and to Chlorobium tepidum sulfate transporter family protein CT0714 SWALL:Q8KEH5 (EMBL:AE012842) (618 aa) fasta scores: E(): 6.6e-107, 52.61% id in 555 aa, and to Clostridium perfringens probable sulfate permease CPE1480 SWALL:Q8XKC0 (EMBL:AP003190) (551 aa) fasta scores: E(): 2.1e-106, 51.79% id in 558 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0019 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank
TI272559S000020 20 Bacteroides fragilis 0 512 CDS BF0020 60679617 GI:60679617;GeneID:3289299 NC_003228 60679597 putative rubrerythrin NC_003228 25097-25675 Similar to Porphyromonas gingivalis rubrerythrin Rr or Rbr SWALL:RUBY_PORGI (SWALL:Q9AGG3) (200 aa) fasta scores: E(): 2.7e-49, 66.66% id in 192 aa, and to Bacteroides thetaiotaomicron rubrerythrin BT3182 SWALL:AAO78288 (EMBL:AE016939) (192 aa) fasta scores: E(): 4.8e-71, 94.79% id in 192 aa, and to Moorella thermoacetica rubrerythrin Rbr SWALL:Q9RMF8 (EMBL:AF202316) (191 aa) fasta scores: E(): 1.9e-46, 67.19% id in 189 aa http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=search&term=BF0020 Bacteroides fragilis NCTC 9343, complete genome. 2006-05-02 GenBank

Total number of rows: 4231

Table truncated, full table size 2532 Kbytes.




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Supplementary file Size Download File type/resource
GPL15187_2006-07-27_TI272559_60mer.ndf.gz 21.3 Mb (ftp)(http) NDF
GPL15187_2006-07-27_TI272559_60mer.ngd.gz 456.0 Kb (ftp)(http) NGD

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