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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. Keywords = Rice Keywords = Plant Keywords = monocotyledons Keywords = full-length cDNA Keywords = NIAS
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
Total number of rows: 8987 Table truncated, full table size 1658 Kbytes .
Supplementary data files not provided