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Status
Public on Jun 11, 2005
Title
Rice 8987 EST microarray
Technology type
spotted DNA/cDNA
Distribution
non-commercial
Organism
Oryza sativa
Description
The enormous collection of approximately 110K ESTs includes the approximately 60 000 ESTs in the Rice Genome Project that have been analyzed thus far; from these 60K ESTs more than 9000 partial cDNA sequences corresponding to unique genes have been identified. On the basis of the results of large-scale cDNA analysis, We used an 8987-EST collection to construct a cDNA microarray for which related to other genomics information (full-length cDNA, expression profile, high accuracy genome sequence, phenotype, genetic map, and physical map) in rice. The microarrays can be used to monitor gene expression profiles and to initiate functional analysis of the rice genome.
Web link
http://cdna01.dna.affrc.go.jp/RMOS/main_en.html Contributor(s)
Kikuchi S , Kojima K , Ishikawa M , Kishimoto N , Sakata K , Yamamoto K , Sasaki T , Yazaki J Citation(s)
15029956 Submission date
May 21, 2004
Last update date
Jun 11, 2005
Contact name
Shoshi Kikuchi
E-mail(s)
skikuchi@nias.affrc.go.jp Phone
81-298-38-7007
Fax
81-298-38-7007
URL
http://cdna01.dna.affrc.go.jp/cDNA/ Organization name
National Institute of Agrobiological Sciences
Department
Molecular Genetics
Lab
Gene Expression
Street address
2-1-2 Kan-nondai
City
Tsukuba
State/province
Ibaraki
ZIP/Postal code
305-8602
Country
Japan
Samples (145)
GSM26027 , GSM26028 , GSM26029 , GSM26030 , GSM26031 , GSM26032
GSM26033 ,
GSM26034 ,
GSM26035 ,
GSM26036 ,
GSM26037 ,
GSM26038 ,
GSM26039 ,
GSM26040 ,
GSM26041 ,
GSM26042 ,
GSM26043 ,
GSM26044 ,
GSM26045 ,
GSM26046 ,
GSM26047 ,
GSM26048 ,
GSM26049 ,
GSM26050 ,
GSM26051 ,
GSM26052 ,
GSM26053 ,
GSM26054 ,
GSM26055 ,
GSM26056 ,
GSM26057 ,
GSM26058 ,
GSM26059 ,
GSM26060 ,
GSM26061 ,
GSM26062 ,
GSM26063 ,
GSM26064 ,
GSM26065 ,
GSM26066 ,
GSM26067 ,
GSM26068 ,
GSM26069 ,
GSM26070 ,
GSM26071 ,
GSM26072 ,
GSM26073 ,
GSM26074 ,
GSM26075 ,
GSM26076 ,
GSM26077 ,
GSM26078 ,
GSM26079 ,
GSM26080 ,
GSM26081 ,
GSM26082 ,
GSM26083 ,
GSM26084 ,
GSM26085 ,
GSM26086 ,
GSM26087 ,
GSM26088 ,
GSM26089 ,
GSM26090 ,
GSM26091 ,
GSM26092 ,
GSM26093 ,
GSM26094 ,
GSM26095 ,
GSM26096 ,
GSM26097 ,
GSM26098 ,
GSM26099 ,
GSM26100 ,
GSM26101 ,
GSM26102 ,
GSM26103 ,
GSM26104 ,
GSM26105 ,
GSM26106 ,
GSM26107 ,
GSM26108 ,
GSM26109 ,
GSM26110 ,
GSM26111 ,
GSM26112 ,
GSM26113 ,
GSM26114 ,
GSM26115 ,
GSM26116 ,
GSM26117 ,
GSM26118 ,
GSM26119 ,
GSM26120 ,
GSM26121 ,
GSM26122 ,
GSM26123 ,
GSM26124 ,
GSM26125 ,
GSM26126 ,
GSM26127 ,
GSM26128 ,
GSM26129 ,
GSM26130 ,
GSM26131 ,
GSM26132 ,
GSM26133 ,
GSM26134 ,
GSM26135 ,
GSM26136 ,
GSM26137 ,
GSM26138 ,
GSM26139 ,
GSM26140 ,
GSM26141 ,
GSM26142 ,
GSM26143 ,
GSM26144 ,
GSM26145 ,
GSM26146 ,
GSM26147 ,
GSM26148 ,
GSM26149 ,
GSM26150 ,
GSM26151 ,
GSM26152 ,
GSM26153 ,
GSM26154 ,
GSM26155 ,
GSM26156 ,
GSM26157 ,
GSM26158 ,
GSM26159 ,
GSM26160 ,
GSM26161 ,
GSM26162 ,
GSM26163 ,
GSM26164 ,
GSM26165 ,
GSM26166 ,
GSM26167 ,
GSM26168 ,
GSM26169 ,
GSM26170 ,
GSM26171 Series (1)
Data table header descriptions ID
CLONE ID EST clone name on the array
FLAG Prohibition to use
F_ELEMENT f array element number
G_ELEMENT g array element number
GB_ACC5' Gen Bank accession ID for 5' sequence of CLONE_ID;
GB_ACC3' Gen Bank accession ID for 3' sequence of CLONE_ID;
FL_CLONE_ID 5' hit Full-length cDNA clone name
GB_ACC1 Gen Bank accession ID for 5' hit Full-length cDNA
DESCRIPTION Product annotation of GB_ACC1
GB_ACC2 Gen Bank accession ID for DESCRIPTION
FL_CLONE_ID1 3' hit Full-length cDNA clone name
GB_ACC4 Gen Bank accession ID for 3' hit Full-length cDNA
DESCRIPTION1 Product annotation of GB_ACC5
GB_ACC5 Gen Bank accession ID for DESCRIPTION1
GB_LIST GenBank accession numbers. ,
SPOT_ID Column added by GEO staff to facilitate sequence tracking in Entrez GEO
Data table ID CLONE ID FLAG F_ELEMENT G_ELEMENT GB_ACC5' GB_ACC3' FL_CLONE_ID GB_ACC1 DESCRIPTION GB_ACC2 FL_CLONE_ID1 GB_ACC4 DESCRIPTION1 GB_ACC5 GB_LIST SPOT_ID 1
CB0001
1
1
D21881 AU075966 J013147A18
AK068256
Xenopus laevis, clone MGC:53769 IMAGE:5537232, mRNA, complete cds.|VRT
BC043881
J013147A18
AK068256
Xenopus laevis, clone MGC:53769 IMAGE:5537232, mRNA, complete cds.|VRT
BC043881
D21881 , AU075966 2
CB0003
1
16
783
AU166259 Flag
Flag
Flag
Flag
Flag
Flag
Flag
Flag
AU166259 3
CB0004
22
1547
D21883 AU075553 J033114G24
AK122053
Oryza sativa mRNA for class III chitinase homologue (OsChib3H-b), complete cds, clone:C60416.|PLN
AB027421
J013123G23
AK067962
Oryza sativa mRNA for class III chitinase homologue (OsChib3H-b), complete cds, clone:C60416.|PLN
AB027421
D21883 , AU075553 4
CB0005
26
2307
D21884 AU075967 J033070L24
AK101886
Triticum aestivum clone wkm1c.pk0004.c1:fis, full insert mRNA sequence.|PLN
BT009082
J033070L24
AK101886
Triticum aestivum clone wkm1c.pk0004.c1:fis, full insert mRNA sequence.|PLN
BT009082
D21884 , AU075967 5
CB0008
45
3849
D21886 AU075970 D21886 , AU075970 6
CB0010
7
13
AU067835 AU067836 J023008A08
AK069161
Arabidopsis thaliana unknown protein (At3g54230) mRNA, complete cds.|PLN
AY096433
J023008A08
AK069161
Arabidopsis thaliana unknown protein (At3g54230) mRNA, complete cds.|PLN
AY096433
AU067835 , AU067836 7
CB0011
17
1537
D21887 AU075971 J013073E14
AK120384
Arabidopsis thaliana Altered Response to Gravity (ARG1) mRNA, complete cds.|PLN
AF089810
D21887 , AU075971 8
CB0012
23
1549
D21888 AU075972 J033069M07
AK073848
Oryza sativa mRNA for OsNAC4 protein, complete cds.|PLN
AB028183
J033069M07
AK073848
Oryza sativa mRNA for OsNAC4 protein, complete cds.|PLN
AB028183
D21888 , AU075972 9
CB0013
27
2309
D21889 AU166261 J023111H09
AK071766
Arabidopsis thaliana Unknown protein (F16P17.17) mRNA, complete cds.|PLN
AF387005
D21889 , AU166261 10
CB0017
2
3
D21892 AU075974 J023075B19
AK121128
Arabidopsis thaliana At3g42170 mRNA, complete cds.|PLN
BT003157
J013110B04
AK067574
Arabidopsis thaliana At3g42170 mRNA, complete cds.|PLN
BT003157
D21892 , AU075974 11
CB0018
1
8
15
AU166262 Flag
Flag
Flag
Flag
Flag
Flag
Flag
Flag
AU166262 12
CB0019
1
18
1539
D21893 Flag
Flag
Flag
Flag
Flag
Flag
Flag
Flag
D21893 13
CB0021
28
2311
D21894 AU075976 001-130-B06
AK119274
Arabidopsis thaliana ABC-type transport protein-like protein (At3g47790) mRNA, complete cds.|PLN
AY099665
001-130-B06
AK119274
Arabidopsis thaliana ABC-type transport protein-like protein (At3g47790) mRNA, complete cds.|PLN
AY099665
D21894 , AU075976 14
CB0022
35
3077
D21895 AU075977 J013114C10
AK067799
Arabidopsis thaliana unknown protein (At1g29120:At1g29130) mRNA, complete cds.|PLN
AY093168
J013114C10
AK067799
Arabidopsis thaliana unknown protein (At1g29120:At1g29130) mRNA, complete cds.|PLN
AY093168
D21895 , AU075977 15
CB0026
9
769
D21897 C96613 J033087C14
AK121748
Avena fatua Af10-protein mRNA, complete cds.|PLN
U80041
J033087C14
AK121748
Avena fatua Af10-protein mRNA, complete cds.|PLN
U80041
D21897 , C96613 16
CB0027
19
1541
D21898 AU085691 J033075H15
AK099387
Triticum aestivum aldolase mRNA, partial cds.|PLN
AF479042
J033075H15
AK099387
Triticum aestivum aldolase mRNA, partial cds.|PLN
AF479042
D21898 , AU085691 17
CB0030
36
3079
D21900 J033067D16
AK073816
Oryza sativa seed protein B32E mRNA, partial cds.|PLN
AF251071
D21900 18
CB0031
39
3085
D21901 AU075554 J013123P18
AK067909
Triticum aestivum clone wdk1c.pk023.m3:fis, full insert mRNA sequence.|PLN
BT008971
J013123P18
AK067909
Triticum aestivum clone wdk1c.pk023.m3:fis, full insert mRNA sequence.|PLN
BT008971
D21901 , AU075554 19
CB0034
10
771
AU067845 J033091C16
AK102348
Arabidopsis thaliana AT5g28840/F7P1_20 mRNA, complete cds.|PLN
AY116953
AU067845 20
CB0037
29
2313
D21905 AU075980 J033096I21
AK102536
Triticum aestivum clone wre1n.pk0044.b2:fis, full insert mRNA sequence.|PLN
BT009584
J033096I21
AK102536
Triticum aestivum clone wre1n.pk0044.b2:fis, full insert mRNA sequence.|PLN
BT009584
D21905 , AU075980
8987 1658 Kbytes .Supplementary data files not provided
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