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Platform GPL16030 Query DataSets for GPL16030
Status Public on Dec 31, 2012
Title Agilent-033484 Populus 8x60K v2.0 (Feature Number version)
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Populus trichocarpa
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description Populus transcriptome based on v2.2.
Arrays of this design have barcodes that begin with 16033484 or 2533484.

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.

*** A different version of this platform with the Agilent Probe names in the ID column is assigned accession number GPL16322.
 
Contributor(s) Tsai C, Xue L
Submission date Sep 08, 2012
Last update date Dec 31, 2012
Contact name Chung-Jui Tsai
E-mail(s) cjtsai@uga.edu
Organization name University of Georgia
Department School of Forestry and Natural Resources
Street address 120 Green Street
City Athens
State/province GA
ZIP/Postal code 30606
Country USA
 
Relations
Alternative to GPL16322 (Probe Name version)

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
NAME NAME
SPOT_ID Spot identifier
CONTROL_TYPE Control type
GB_ACC GenBank Accession number
GENE_NAME Popgenie.org Locus
miRNA_ID miRBase identifier
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
DESCRIPTION Description
SEQUENCE Sequence

Data table
ID COL ROW NAME SPOT_ID CONTROL_TYPE GB_ACC GENE_NAME miRNA_ID ACCESSION_STRING CHROMOSOMAL_LOCATION DESCRIPTION SEQUENCE
1 192 328 GE_BrightCorner GE_BrightCorner pos
2 192 326 DarkCorner DarkCorner pos
3 192 324 DarkCorner DarkCorner pos
4 192 322 pt2_41647 pt2_41647 FALSE POPTR_0125s00230 POPTR_0125s00230 chr125:44749-44867 TCTGGGTTACACAACCAATTTGGCAGATGAACAAGTACTCCAAGCCACATTCCATGGAAG
5 192 320 pt2_31815 pt2_31815 FALSE POPTR_0014s05520 POPTR_0014s05520 chr14:4140706-4140765 alpha/beta-Hydrolases superfamily protein ACATTGCTTGTGGAAGTCGGTCAAAGGAAGAGACATGAATTTGCAATGAAAGATGAATGA
6 192 318 pt2_20847 pt2_20847 FALSE POPTR_0008s11490 POPTR_0008s11490 chr8:7309177-7309236 Transcription factor bHLH30 AGTGTTAAGAGACAAAGAACCAATATCAATGTCCTTCAACAACAACACAGGTCTCTATAA
7 192 316 pt2_33498 pt2_33498 FALSE POPTR_0015s02310 POPTR_0015s02310 chr15:1638846-1638905 Transcription factor TRY CGCGAAGGGTTTGCTGAAAACGGAAAATTGTATAACGAAGTGAAGTCTAGGACTTCTAGT
8 192 314 pt2_42038 pt2_42038 FALSE POPTR_0293s00230 POPTR_0293s00230 chr17:1910684-1910743 GDSL esterase/lipase 3 AAACGAACTAGAACAAGAAGTTCAGGCTGCATGGATGAAGTTGCAGTTCTGACAAAGCTA
9 192 312 pt2_38182 pt2_38182 FALSE POPTR_0018s03700 POPTR_0018s03700 chr18:3157307-3157366 Plasma membrane ATPase 4 TCAGTGGTGAAGCTGAAGGGACTAGACATTGATACAATTCAACAACATTACACCCTTTAA
10 192 310 pt2_18065 pt2_18065 FALSE POPTR_0006s29200 POPTR_0006s29200 chr6:26643195-26643254 Poly(rC)-binding protein 3 TCAAGTATGGGAGGGTATGGATCGCCTGGTGCAGGAGGTTACAACAATTATAGATTTTGA
11 192 308 pt2_36152 pt2_36152 FALSE POPTR_0016s13400 POPTR_0016s13400 chr16:12584393-12584452 Probably inactive leucine-rich repeat receptor-like protein kinase IMK2 ATGAAGTCTTTGATTTAGAGATTATGAGGGATGCACAAACTATAGGTGATGATGAGTTGC
12 192 306 pt2_29852 pt2_29852 FALSE POPTR_0013s01890 POPTR_0013s01890 chr13:1096782-1096841 Probable histone H2A.5 CAAGAAAAGTGCAAGCAGTGAGAAATCTTCTGGATCCGAGCCCAAATCTCCTAAAAAGGC
13 192 304 pt2_32403 pt2_32403 FALSE POPTR_0014s11070 POPTR_0014s11070 chr14:8239724-8239783 Momilactone A synthase AAACCTTGTTACTAGCACTTCCCATGTGCTTTTCCTTGTAATCTGCGAGATATGTTCTTT
14 192 302 pt2_20127 pt2_20127 FALSE POPTR_0008s04600 POPTR_0008s04600 chr8:2632316-2632375 Two-component response regulator-like PRR73 ACATGGGTGATAGCTCATCATAGAATGCTTTGGCAACTTCAGTCGAGCATCTCTCTCTTT
15 192 300 pte_43838 pte_43838 FALSE BP928501 EST_BP928501 unmapped ubiquitin fusion degradation 1 TGGAGTCTGGAGTTTATTGCTAGGAACGGATGATTTATATGCCATACTGGATGATGGAGA
16 192 298 pt2_20332 pt2_20332 FALSE POPTR_0008s06550 POPTR_0008s06550 chr8:3902754-3902913 Probable 26S proteasome non-ATPase regulatory subunit 7 ACTATCAGTACTCTTGCAACTGAGGTTACTGGGAAACTCGCAGCTTTGAAAGGGTTGGAT
17 192 296 pte_43115 pte_43115 FALSE AI161737 EST_AI161737 unmapped SNF7 family protein ATGGATCATTTGAGAAGCATTTGTGATATGGAGTACAGCAGAGTCATGGAGAGCGCGATG
18 192 294 pt2_29103 pt2_29103 FALSE POPTR_0012s09640 POPTR_0012s09640 chr12:10606517-10606576 Protein of unknown function (DUF3537) TTGGAGATGTCGCTGGTTCTTTTTGTACTTGGGAAGACCATAACCATCTATCATTCGTAA
19 192 292 pt2_03104 pt2_03104 FALSE POPTR_0001s30270 POPTR_0001s30270 chr1:28804142-28804201 BTB/POZ domain-containing protein At1g30440 TCAAACAAAGGAGAAAAGGGTGAGAAGAGTGGCTCGGATTCATCAGAGAGTACTGGTTCT
20 192 290 pt2_41688 pt2_41688 FALSE POPTR_0138s00210 POPTR_0138s00210 chr4:1687416-1687475 Cysteine-rich receptor-like protein kinase 8 GTTGGTTTACTATGTGTGCAGGAAAATGCACTTGATAGACCAAACATGGCTTCAGTTGTT

Total number of rows: 62976

Table truncated, full table size 11195 Kbytes.




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