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Platform GPL32341 Query DataSets for GPL32341
Status Public on Feb 23, 2023
Title Agilent-084490 Candidatus Atelocyanobacterium thalassa custom microarray
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Candidatus Atelocyanobacterium thalassa
Manufacturer Agilent Technologies
Manufacture protocol See manufacturer's web site at http://www.agilent.com/
 
Description Agilent-084490 microarray that targets UCYN-A1,2,3 [Candidatus Atelocyanobacterium thalassa]
Platform Data table includes only features that were used during normalization. Supplementary file includes platform description with the full set of features.
 
Contributor(s) Muñoz-Marin M, Magasin JD, Zehr JP
Submission date Jun 10, 2022
Last update date Feb 24, 2023
Contact name Jonathan David Magasin
E-mail(s) jmagasin@ucsc.edu
Organization name UC Santa Cruz
Department Ocean Sciences
Lab Dr. Jonathan Zehr Lab
Street address 1156 High Street
City Santa Cruz
State/province CA
ZIP/Postal code 95062
Country USA
 
Samples (16) GSM6253147, GSM6253148, GSM6253149, GSM6253150, GSM6253151, GSM6253152 
Series (1)
GSE206403 Open ocean and coastal strains of the N2-fixing cyanobacterium UCYN-A have distinct transcriptomes

Data table header descriptions
ID Agilent feature number. Includes only features that were used during normalization. Supplementary data include platform description with the full set of features.
Row Row coordinate on the array
Col Column coordinate on the array
ProbeName Name of the probe associated with the feature. Names indicate whether the probe is for UCYN-A (CUST), ERCC spike-ins, or Agilent controls.
ControlType UCYN-A and ERCC features have value 0. Agilent controls have non-0 values.
SystematicName Gene ID for UCYN-A features. GenBank accessions for ERCC features.
ORGANISM UCYN-A1, UCYN-A2, or UCYN-A3 for experimental features.
GENOME_ACC For UCYN-A1 and A2, an accession for the NCBI RefSeq genome or assembly. UCYN-A3 genes have no accessions. They are from Cornejo-Castillo et al. (2019; doi: 10.1111/1462-2920.14429).
ORF Locus tag associated with the RefSeq accession in GENOME_ACC.
GeneSymbol Assigned gene symbol, usually from a computational prediction.
Pathway Assigned pathway, usually from a computational prediction.
GeneDescription Annotation associated with the GeneSymbol or Pathway.
SEQUENCE DNA sequence of the oligonucleotide for the feature.
SPOT_ID

Data table
ID Row Col ProbeName ControlType SystematicName ORGANISM GENOME_ACC ORF GeneSymbol Pathway GeneDescription SEQUENCE SPOT_ID
4 1 4 CUST_3296_PI429860551 0 GID.2528847868 UCYN-A2 GCF_000737945.1 ucyna2_00615 small GTP-binding protein domain TTTCCATCAACATTTCTAATCTTTATAGGTATAGTTTTAGGGGAGGCAGCTACTAAAACT CUST_3296_PI429860551
5 1 5 CUST_5724_PI429860551 0 GID.2528848330 UCYN-A2 GCF_000737945.1 ucyna2_01077 Predicted membrane protein ACATCTTCTCCCAAGAAGGCCCAAGCAAAAATACCATTTAGAACATAACTAGAGGCATGA CUST_5724_PI429860551
6 1 6 CUST_748_PI429860551 0 GID.2528847395 UCYN-A2 GCF_000737945.1 ucyna2_00141 Protein of unknown function (DUF3252) TAGGAGTAATTGCCTCAATCTCGGACAAAGGGAAAGTAACTAATTTACTCCAGTTTCCCC CUST_748_PI429860551
7 1 7 CUST_4803_PI429860547 0 GID.646530144 UCYN-A1 NC_013771.1 UCYN_03540 ppk Oxidative phosphorylation polyphosphate kinase [Cyanobacterium UCYN-A: NC_013771] (+)strand TCCAGAAAATAAAGCTTCAATGTTATGAGCAATGACTTGTTCTAATGGTATACCCTGCCA CUST_4803_PI429860547
8 1 8 CUST_1330_PI429860551 0 GID.2528847499 UCYN-A2 GCF_000737945.1 ucyna2_00245 ATPases with chaperone activity ( ATP-binding subunit) TATCTTCAAGAATATCAGGAATGTCTTGGTTAGCAATACGTTGGGCAAGTCCCTCAGCAA CUST_1330_PI429860551
9 1 9 CUST_2029_PI429860551 0 GID.2528847630 UCYN-A2 GCF_000737945.1 ucyna2_00377 hypothetical protein TCTGTTATCTTTAACCTAAGTATACCAGAAGCAAAACCACCAGTAAAAGCAAAAGGTTGT CUST_2029_PI429860551
10 1 10 ERCC-00086_228 0 DQ516791 TTTAGGCGTTGATGTTGCAGTTGGAGGGATGGAGCAGAGAAAAATACACATGTTAGCAAG ERCC-00086_228
11 1 11 CUST_2799_PI429860547 0 GID.646530521 UCYN-A1 NC_013771.1 UCYN_07370 sufC ABC transporters FeS assembly ATPase SufC [Cyanobacterium UCYN-A: NC_013771] (-)strand TGTCCTTTATAAATTATTTCTCCTCCAGTGACTTCATAGTCAGGATGTCCTGCAATAACT CUST_2799_PI429860547
12 1 12 CUST_720_PI429860551 0 GID.2528847389 UCYN-A2 GCF_000737945.1 ucyna2_00135 hypothetical protein AGATGAATTTTCTCATTTTTTAAAGTTTGCAACTGTGCAGCGGCATCTAAGCATTTAGCT CUST_720_PI429860551
13 1 13 CUST_1259_PI434254328 0 GID.k99_266_UCYN_RS00855 UCYN-A3 UCYN_RS00855 hypothetical protein [Cyanobacterium UCYN-A: NC_013771] (+)strand ATCGTATTGCACTTTGGCGTCTACGTTCTACTAATCCTTGGAGACGTGCTTATAATCGTG CUST_1259_PI434254328
14 1 14 ERCC-00071_128 0 DQ883654 AGCAAGGAGATTCTTCGCGACCTGGCCCATTCACTACATAACAGAGTTAAGACTTAGATC ERCC-00071_128
15 1 15 CUST_1870_PI429860547 0 GID.646530698 UCYN-A1 NC_013771.1 UCYN_09180 ecfT ABC transporters Transmembrane component of energizing module of ECF transporters in Cyanobacteria [Cyanobacterium UCYN-A: NC_013771] (+)strand GTAGCCATGTGAGGGGCTTTTCAAGATAAAGTCCAATAGGTAATGATCGCAATAGATCCA CUST_1870_PI429860547
16 1 16 CUST_1176_PI429860551 0 GID.2528847472 UCYN-A2 GCF_000737945.1 ucyna2_00218 lptG ABC transporters Predicted permeases TGGTGCCGTTAAAGAAGTCCCAGGTATTACTTGAAATATTCCAAGTTGCAGACTCAGAGG CUST_1176_PI429860551
17 1 17 CUST_3943_PI429860547 0 GID.646530305 UCYN-A1 NC_013771.1 UCYN_05190 Ribosome ribosome-associated GTPase EngA [Cyanobacterium UCYN-A: NC_013771] (+)strand TAAGCCATGCTCAGGAGACTCACATTTGTTAACCGCAAGTAATACTGGAACTTTTTGCTG CUST_3943_PI429860547
18 1 18 CUST_2707_PI429860547 0 GID.646530541 UCYN-A1 NC_013771.1 UCYN_07570 condensin subunit ScpB [Cyanobacterium UCYN-A: NC_013771] (+)strand TGGACGAAGTTGCAAACTATATCCATTTTCTGTTTCTATGACTTCCAATGCACTGTCACG CUST_2707_PI429860547
19 1 19 CUST_3784_PI429860551 0 GID.2528847960 UCYN-A2 GCF_000737945.1 ucyna2_00707 amino acid ABC transporter substrate-binding protein- PAAT family (TC 3.A.1.3.-) AAGGGACGAGTATTGTCTTTTACAGCAACAATTAGTTTTCCTCGTTCTCTGATTTGTTCT CUST_3784_PI429860551
20 1 20 CUST_5221_PI429860551 0 GID.2528848231 UCYN-A2 GCF_000737945.1 ucyna2_00978 DPO1 DNA replication DNA polymerase I - 3'-5' exonuclease and polymerase domains TCCAAAGATTGTTCTACTTTTGAAAATAACTGCTCTAAAGATGGAAATTTCTTGAGCTTT CUST_5221_PI429860551
21 1 21 CUST_2435_PI429860547 0 GID.646530593 UCYN-A1 NC_013771.1 UCYN_08110 lpxB Lipopolysaccharide biosynthesis hypothetical protein [Cyanobacterium UCYN-A: NC_013771] (+)strand AAAGAGATTACGCAAAGAAACCACAACAGGTCTAACCCAAGTAGTTATTTCTCCTGGGCC CUST_2435_PI429860547
22 1 22 CUST_847_PI429860547 0 GID.646530893 UCYN-A1 NC_013771.1 UCYN_11190 hypothetical protein [Cyanobacterium UCYN-A: NC_013771] (-)strand AACACCACCATCCCCCTTCTTCTACATGTTCATAACGCTTTAAGATAGAGTTGCTAAGCC CUST_847_PI429860547
23 1 23 CUST_6152_PI429860547 0 GID.646529894 UCYN-A1 NC_013771.1 UCYN_00960 glcH Transporter Na+/proline symporter [Cyanobacterium UCYN-A: NC_013771] (+)strand (Posible glucose transporter described in Mu?±oz-Mar??n et al., 2013.PNAS.) TGCAGTAATTCCTGCCGCATCATTCCACGTAAAACCAAGATGTCTGTTGTAAACAATAGG CUST_6152_PI429860547

Total number of rows: 62269

Table truncated, full table size 14050 Kbytes.




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Supplementary file Size Download File type/resource
GPL32341_geo_platform_table_fullForSuppData_2022June10.tsv.gz 3.3 Mb (ftp)(http) TSV

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