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Platform GPL30841 Query DataSets for GPL30841
Status Public on Oct 16, 2021
Title Agilent-022830 RIKEN_AT_sORF0902 [Feature Number version]
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Arabidopsis thaliana
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description This microarray targets 34546 mRNA-like transcripts inclusing 26254 annotated coding genes (TAIR8), 6,946 coding sORFs identified at Hanada et al (Genome Research 2007 17:632-640) and 1,346 novel transcripts verified by full length cDNAs. This microarray will be useful for scientists studying gene activity associated with various plant organ functions, stages of growth, and biotic and abiotic stresses.


Arrays of this design have barcodes that begin with 16022830 or 2522830.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.
 
Submission date Oct 11, 2021
Last update date Oct 16, 2021
Contact name Kousuke Hanada
E-mail(s) kohanada@bio.kyutech.ac.jp
Organization name Kyushu Institute Technology
Department Department of Bioscience and Bioinformatics
Street address 680-4 Kawazu
City Iizuka
State/province Fukuoka
ZIP/Postal code 820-8502
Country Japan
 
Samples (24) GSM5625456, GSM5625457, GSM5625458, GSM5625459, GSM5625460, GSM5625461 
Series (1)
GSE185907 Stimulations of the growth rate in elevated CO2 condition were observed in over-expression or RNA interference lines of genes identified by intraspecific variation analyses.

Data table header descriptions
ID Agilent feature number
SPOT_ID Probe name
Row
Col
accessions
chr_coord
SubTypeMask
SubTypeName
Start
SEQUENCE Sequence
ProbeUID
CONTROL_TYPE Control type
ORF ORF Name
SystematicName
Description

Data table
ID SPOT_ID Row Col accessions chr_coord SubTypeMask SubTypeName Start SEQUENCE ProbeUID CONTROL_TYPE ORF SystematicName Description
1 GE_BrightCorner 1 1 260 BrightCorner 0 0 1 GE_BrightCorner GE_BrightCorner
2 DarkCorner 1 2 66 Structural 0 1 1 DarkCorner DarkCorner
3 DarkCorner 1 3 66 Structural 0 1 1 DarkCorner DarkCorner
4 DarkCorner 1 4 66 Structural 0 1 1 DarkCorner DarkCorner
5 DarkCorner 1 5 66 Structural 0 1 1 DarkCorner DarkCorner
6 DarkCorner 1 6 66 Structural 0 1 1 DarkCorner DarkCorner
7 DarkCorner 1 7 66 Structural 0 1 1 DarkCorner DarkCorner
8 DarkCorner 1 8 66 Structural 0 1 1 DarkCorner DarkCorner
9 DarkCorner 1 9 66 Structural 0 1 1 DarkCorner DarkCorner
10 DarkCorner 1 10 66 Structural 0 1 1 DarkCorner DarkCorner
11 DarkCorner 1 11 66 Structural 0 1 1 DarkCorner DarkCorner
13 ATRIKEN31987 1 13 sORF|chr5_+_24367461-24367580 chr5:24367461-24367580 0 0 CCCAAAGCCGGAGGAAGAGGAGACTATGAATTAGGAATTTATGATCATTTGGTGGTATTT 4 0 unknown NEW_TU_6195 GC(40):NO_Xhybri
14 ATRIKEN13566 1 14 TAIR|AT3G53520.1 chr3:19852613-19855035 0 0 ACCATTCGCAAACACCCAATGACTGTTTATGGTGATGGAAAACAGACTCGTAGCTTTCAA 6 0 UXS1_(UDP-GLUCURONIC_ACID_DECARBOXYLASE_1);_catalytic AT3G53520 GC(42):NO_Xhybri
15 ATRIKEN08029 1 15 TAIR|AT2G17880.1 chr2:7774740-7774258 0 0 CTGCATCACAAAACCCAAATCGGAACTTAAACCAAAAGACAAACAAAAACGCCGTCGTTT 8 0 DNAJ_heat_shock_protein _putative AT2G17880
16 ATRIKEN27822 1 16 sORF|chr2_+_239319-239447 chr2:239319-239447 0 0 AATATCAATGAAAGTCACAGCTGGCAGGAAATCTACGGTATCGTTATCTGGTGGACTTTT 10 0 unknown NEW_TU_1070 GC(40):NO_Xhybri
17 ATRIKEN27713 1 17 sORF|chr2_+_5668190-5668303 chr2:5668190-5668303 0 0 CTATATGGTAAACTCCGCGAAGCCGAGGATAGGTGGAAATAAAGTAAATGTGGGTTTAAT 12 0 unknown NEW_TU_952 GC(40):NO_Xhybri
18 ATRIKEN10969 1 18 TAIR|AT2G13295.1 chr2:5521717-5521388 0 0 CAAAACTTTGACTTTTATAAGCTCTCCAAACTCTCTCATGCATGCGGCGACCTCTTAGTC 13 0 Encodes_a_Protease_inhibitor/seed_storage/LTP_family_protein AT2G13295 GC(43):NO_Xhybri
20 ATRIKEN20199 1 20 TAIR|AT4G26780.1 chr4:13486566-13485072 0 0 ATTCATTAGATGAACAAGATCTCCCATAAGTTGCTGGACATGGCATTTGCAGGGGAAATC 16 0 AR192;_adenyl-nucleotide_exchange_factor/_chaperone_binding_/_protein_binding_/_protein_homodimerization AT4G26780 GC(42):NO_Xhybri
21 ATRIKEN30075 1 21 sORF|chr1_-_3269217-3269342 chr1:3269342-3269217 0 0 CGGTTATGATGGTAGCCATCAAGTGACATACGACCACAAAACCTTGAAAATGACTTTGTA 18 0 unknown NEW_TU_3849 GC(40):NO_Xhybri
22 ATRIKEN30830 1 22 sORF|chr4_+_3449846-3449944 chr4:3449846-3449944 0 0 AAAGCTCACGCTGAAAATGCAATAGATGGTTCATCTATATTAAAGTGGAAGGGATCTTGA 20 0 unknown NEW_TU_4763 GC(37):NO_Xhybri

Total number of rows: 35679

Table truncated, full table size 7565 Kbytes.




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