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Platform GPL1991 Query DataSets for GPL1991
Status Public on Apr 28, 2005
Title Maize oligo array version 1.2 array B
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Zea mays
 
Description Spotted oligo array on glass. The whole maize array set 1.2 version contains 56310 unique probes from maize and array B contains 27190 of them. The number of total spots including empty and controls is 32448.
 
Web link http://www.maizearray.org
Contributor(s) Buell CR
Submission date Apr 25, 2005
Last update date Jun 16, 2005
Contact name Li Zheng
E-mail(s) maizearray_only@tigr.org
Phone 301-795-7000
Organization name The Institute for Genomic Research
Department
Lab Robin Buell
Street address 9712 Medical Center Dr.
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
 
Samples (14) GSM88825, GSM88827, GSM88831, GSM88837, GSM88839, GSM88843 
Series (3)
GSE3890 Gene expression profiling of bundle sheath and mesophyll cell types of wild-type maize seedlings.
GSE9341 Gene expression in Maize root region 1 at low water potential
GSE9379 Gene expression in Maize root

Data table header descriptions
ID Spot identifier for each feature
BLOCK The block number in which the oligo was spotted (48 total)
ROW The row within each block that the oligo was spotted (26 total)
COLUMN The column within each block that the oligo was spotted (26 total)
VENDER_ID The unique oligo ID assigned by Operon
NAME The accession of the longest representative sequence that matches the oligo with 100% identity over 100% of the oligo sequence. The sequence can be an Assembled Zea Mays (AZM) genomic sequence (eg. ZM4_13684), a GenBank entry (eg. BG319830), a TIGR Maize Gene Index entry (TC233604) or a Maize Repeat entry (e.g. ZRSgTERTOOT22542).
GB_ACC GenBank accession
SPOT_ID
TIGR_ID The unique oligo ID assigned by the TIGR databases to each oligo
OLIGO_CATEGORY A single or multiple letter code designating the database(s) source that this oligo was mapped to: G Gene Index, A AZM, R Maize Repeat Database, O Organelle, S Special
PUTATIVE_ANNOTATION The putative annotation for this oligo. The annotation is generated by searching the representative longest sequence against a non-redundant amino acid database. The annotation from the top nraa hit (above certain cutoff (P_value of E-10)) was used as the putative annotation of the oligo. NA means no match was present in the nraa database above the cutoff value.
TOP_NRAA_HIT Genbank accession number(s) for the clone.
OTHER_MAIZE_MATCH_100_100 The accession number of other maize matches of the oligo sequence with 100% identity over 100% of the oligo sequence. The sequence could be derived from the TIGR maize gene index, AZM, Maize Repeat database or other GenBank maize sequences. The accession numbers are separated by ; for the entries with more than 1 match.
MAIZE_MATCH_95_100 The accession numbers of the top 3 maize matches of the oligo sequence with greater than 95% identity over 100% of the oligo sequence, but less than 100% identity. The sequence could be derived from the TIGR maize gene index, AZM, Maize repeat database or other Genbank maize sequences. The accession numbers are separated by ; for the entries with more than 1 match. Note, we only provide the top 3 matches.
MATCH_RICE_MODEL The accessions numbers of the top 3 rice models that the maize oligo align with. The longest representative sequence (the sequence in Name field) was searched against the TIGR Rice Annotation Database (Release 2) and the top 3 rice models above cutoff (P_value E-25) were listed in this field. The rice model names are separated by ; for the entries with more than 1 match.
EC The putative EC assignment for the oligo. Multiple EC# were connected by |. The longest representative sequence (the sequence in Name field) was searched against the nraa database and go.pep database to get the EC assignment using cutoff E-25 (P_value).

Data table
ID BLOCK ROW COLUMN VENDER_ID NAME GB_ACC SPOT_ID TIGR_ID OLIGO_CATEGORY PUTATIVE_ANNOTATION TOP_NRAA_HIT OTHER_MAIZE_MATCH_100_100 MAIZE_MATCH_95_100 MATCH_RICE_MODEL EC
102435 1 1 1 MZ00002380 AZM4_14521 TIGR:AZM4_14521 TM00002380 A phosphatidylinositol, 3,5-kinase-like, {Oryza, sativa, (japonica, cultivar-group);} GB|BAD08926.1|42407781|AP003909 NA NA 9636.m00039;9632.m05821;9640.m01298 2.7.1.68
102436 1 1 2 MZ00002386 AZM4_49988 TIGR:AZM4_49988 TM00002386 A OSJNBa0087O24.3, {Oryza, sativa, (japonica, cultivar-group);} GB|CAE03580.1|32488653|OSJN00091 NA NA 9632.m05551;9637.m00576;9632.m05552 3.2.1.26|3.2.1.80|2.4.1.100|2.4.1.99
102437 1 1 3 MZ00002404 AZM4_100937 TIGR:AZM4_100937 TM00002404 A hypothetical, protein, similar, to, Oryza, sativa, chromosome, 1,, P0431G06.13, {Oryza, sativa, (japonica, cultivar-group);} GB|BAB92409.1|20804723|AP003293 NA NA 9629.m05740;9629.m07160;9639.m03873 NA
102438 1 1 4 MZ00002410 AZM4_135577 TIGR:AZM4_135577 TM00002410 A putative, phosphatase, {Oryza, sativa, (japonica, cultivar-group);} GB|AAS07224.1|41469401|AC135563 NA NA 9631.m05814 NA
102439 1 1 5 MZ00002428 AZM4_79828 TIGR:AZM4_79828 TM00002428 A putative, flavonol, 3-O-glucosyltransferase, {Oryza, sativa, (japonica, cultivar-group);} GB|BAC83989.1|34394683|AP005186 NA NA 9635.m03144;9635.m03142;9635.m03743 2.4.2.40|2.4.1.91|2.4.1.210|2.4.1.-|2.4.1.203|2.4.1.218
102440 1 1 6 MZ00002434 AZM4_91003 TIGR:AZM4_91003 TM00002434 A Galactoside, 2-alpha-L-fucosyltransferase, (EC, 2.4.1.69), (Xyloglucanalpha-(1,2)-fucosyltransferase), (PsFT1)., {Pisum, sativum;}, ^|^GB|AAF62896.1|7453579|AF223643, xyloglucan, fucosyltransferase, {Pisum, sativum;} SP|Q9M5Q1|FUT1_PEA AZM4_91000; NA 9630.m05193;9634.m01069;9634.m01067 2.4.1.69|2.4.1.-
102441 1 1 7 MZ00002452 AZM4_123548 TIGR:AZM4_123548 TM00002452 A nodulin-related, protein-like, {Oryza, sativa, (japonica, cultivar-group);} GB|BAD11650.1|42761382|AP005529 NA NA 9636.m04268;9632.m03041;9636.m01549 NA
102442 1 1 8 MZ00002458 AZM4_134211 TIGR:AZM4_134211 TM00002458 A putative, chloroplast, nucleoid, DNA-binding, protein, cnd41, {Oryza, sativa, (japonica, cultivar-group);}, ^|^GB|BAD12875.1|45735840|AP004040, putative, chloroplast, nucleoid, DNA-binding, protein, cnd41, {Oryza, sativa, (japonica, cultivar-group);} GB|BAD12995.1|45735966|AP005052 NA NA 9634.m01955;9637.m02720;9630.m04769 3.4.23.1
102443 1 1 9 MZ00051861 AZM4_90744 TIGR:AZM4_90744 TM00051861 A putative, glycine-rich, cell, wall, protein, precursor, {Oryza, sativa, (japonica, cultivar-group);} GB|BAC21356.1|24059890|AP003816 NA NA 9633.m02633;9635.m04943;9635.m04942 NA
102444 1 1 10 MZ00051867 AZM4_90792 TIGR:AZM4_90792 TM00051867 A putative, receptor, serine/threonine, kinase, {Oryza, sativa, (japonica, cultivar-group);}, ^|^GB|BAB61193.1|14587275|AP003219, putative, receptor, serine/threonine, kinase, {Oryza, sativa, (japonica, cultivar-group);} GB|BAC00605.1|21328018|AP003338 NA NA 9629.m00145;9629.m00142;9632.m05838 2.7.1.-|2.7.1.112|3.1.4.46|2.7.1.37
102445 1 1 11 MZ00051885 AZM4_90978 TIGR:AZM4_90978 TM00051885 A receptor, protein, kinase-like, {Oryza, sativa, (japonica, cultivar-group);}, ^|^GB|BAD07491.1|41052643|AP003983, receptor, protein, kinase-like, {Oryza, sativa, (japonica, cultivar-group);} GB|BAD07773.1|41052859|AP004161 NA NA 9630.m04684;9634.m02894;9635.m03616 2.7.1.-|2.7.1.112|2.7.1.37
102446 1 1 12 MZ00051891 AZM4_91061 TIGR:AZM4_91061 TM00051891 A putative, inositol, 1,4,5-trisphosphate, 5-phosphatase, {Oryza, sativa, (japonica, cultivar-group);} GB|BAD08892.1|42407745|AP003887 AZM4_91063 NA 9636.m04188;9637.m02842 3.1.3.56
102447 1 1 13 MZ00051909 AZM4_91300 TIGR:AZM4_91300 TM00051909 A putative, protein, phosphatase, 2C, {Oryza, sativa, (japonica, cultivar-group);} GB|AAL87187.1|19387276|AF480497 NA NA 9632.m05501;9634.m04717;9630.m00488 NA
102448 1 1 14 MZ00051915 AZM4_91376 TIGR:AZM4_91376 TM00051915 A contains, ESTs, AU163460(R10147),AU070720(R10147), unknown, protein, {Oryza, sativa, (japonica, cultivar-group);}, ^|^GB|BAB89415.1|20160462|AP003200, contains, ESTs, AU163460(R10147),AU070720(R10147), unknown, protein, {Oryza, sativa, (japonica, cultivar-group);} GB|BAB56103.1|14209608|AP003244 NA NA 9629.m00968;9633.m00979 NA
102449 1 1 15 MZ00051933 AZM4_91586 TIGR:AZM4_91586 TM00051933 A Serine/threonine, protein, phosphatase, BSL2, (EC, 3.1.3.16), (BSU1-likeprotein, 2)., {Arabidopsis, thaliana;}, ^|^PIR|E86217|E86217, probable, phosphoprotein, phosphatase, (EC, 3.1.3.16), T27G7.10, -, Arabidopsis, thaliana, {Arabidopsis, thaliana;}, ^|^GB|AAF22889.1|6664307|AC006932, T27G7.10, {Arabidopsis, thaliana;} SP|Q9SJF0|BSL2_ARATH NA NA 9631.m04296;9640.m04157;9633.m00456 3.1.3.16
102450 1 1 16 MZ00051939 AZM4_91637 TIGR:AZM4_91637 TM00051939 A OSJNBa0019D11.15, {Oryza, sativa, (japonica, cultivar-group);} GB|CAD41444.1|21741854|OSJN00156 NA AZM4_91636 9632.m04223 NA
102451 1 1 17 MZ00022520 TC233057 TIGR:TC233057 TM00022520 G contains, EST, D40788(S2938), unknown, protein, {Oryza, sativa, (japonica, cultivar-group);}, ^|^GB|BAC10378.1|22324463|AP004673, unknown, protein, {Oryza, sativa, (japonica, cultivar-group);} GB|BAC10415.1|22324501|AP005187 NA NA 9635.m00055 NA
102452 1 1 18 MZ00022526 TC233066 TIGR:TC233066 TM00022526 G NA NA NA NA NA
102453 1 1 19 MZ00022544 TC246533 TIGR:TC246533 TM00022544 G NA NA AZM4_124776;AZM4_124775 NA NA
102454 1 1 20 MZ00022550 TC230852 TIGR:TC230852 TM00022550 GA OSJNBa0039K24.23, {Oryza, sativa, (japonica, cultivar-group);} GB|CAE01804.2|32480060|OSJN00076 AZM4_70504 NA 9632.m05806 NA

Total number of rows: 32448

Table truncated, full table size 6419 Kbytes.




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