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Status
Public on May 03, 2009
Title
Agilent-018073 Custom Brassica 60-mer two-color microarray
Technology type
spotted oligonucleotide
Distribution
non-commercial
Organism
Brassica Manufacturer
Agilent Technologies
Manufacture protocol
The assembled Brassica sequences (94,558 instances including those represented in both orientations) were submitted to Agilent Technologies’ eArray web portal for gene expression probe design. Probes with a base composition score greater than or equal to 3 were omitted from the final design; resulting in a total of 91,854 unique probes (including 6,989 derived from oppositely oriented pairs of sequences) that were included in the microarray design, of which 10,466 were predicted to have cross-hybridization potential.
Submission date
Apr 30, 2009
Last update date
May 08, 2015
Contact name
Andreas Magusin
E-mail(s)
andreas.magusin@jic.ac.uk Organization name
John Innes Centre
Department
Crop Genetics
Street address
Norwich Research Park
City
Norwich
ZIP/Postal code
NR47UH
Country
United Kingdom
Samples (203)
GSM399515 , GSM399516 , GSM399517 , GSM399518 , GSM399519 , GSM399520
GSM399521 ,
GSM399522 ,
GSM399523 ,
GSM399524 ,
GSM399525 ,
GSM399526 ,
GSM399527 ,
GSM399528 ,
GSM399529 ,
GSM399530 ,
GSM574189 ,
GSM574190 ,
GSM574191 ,
GSM574192 ,
GSM574193 ,
GSM574194 ,
GSM667644 ,
GSM667645 ,
GSM667646 ,
GSM667647 ,
GSM667648 ,
GSM667649 ,
GSM667650 ,
GSM667651 ,
GSM667652 ,
GSM667653 ,
GSM667654 ,
GSM667655 ,
GSM667656 ,
GSM667657 ,
GSM667658 ,
GSM667659 ,
GSM667660 ,
GSM667661 ,
GSM667662 ,
GSM667663 ,
GSM667664 ,
GSM667665 ,
GSM667666 ,
GSM667667 ,
GSM667668 ,
GSM667669 ,
GSM667670 ,
GSM667671 ,
GSM667672 ,
GSM667673 ,
GSM667674 ,
GSM667675 ,
GSM667676 ,
GSM667677 ,
GSM667678 ,
GSM667679 ,
GSM667680 ,
GSM667681 ,
GSM667682 ,
GSM667683 ,
GSM667684 ,
GSM667685 ,
GSM667686 ,
GSM667687 ,
GSM667688 ,
GSM667689 ,
GSM667690 ,
GSM667691 ,
GSM667692 ,
GSM667693 ,
GSM667694 ,
GSM667695 ,
GSM667696 ,
GSM667697 ,
GSM667698 ,
GSM667699 ,
GSM667700 ,
GSM667701 ,
GSM667702 ,
GSM667703 ,
GSM667704 ,
GSM667705 ,
GSM667706 ,
GSM667707 ,
GSM667708 ,
GSM667709 ,
GSM667710 ,
GSM667711 ,
GSM667712 ,
GSM667713 ,
GSM667714 ,
GSM667715 ,
GSM667716 ,
GSM667717 ,
GSM667718 ,
GSM667719 ,
GSM667720 ,
GSM667721 ,
GSM667722 ,
GSM667723 ,
GSM667724 ,
GSM667725 ,
GSM667726 ,
GSM667727 ,
GSM667728 ,
GSM667729 ,
GSM667730 ,
GSM667731 ,
GSM667732 ,
GSM667733 ,
GSM667734 ,
GSM667735 ,
GSM667736 ,
GSM667737 ,
GSM667738 ,
GSM667739 ,
GSM667740 ,
GSM667741 ,
GSM667742 ,
GSM667743 ,
GSM667744 ,
GSM667745 ,
GSM667746 ,
GSM667747 ,
GSM667748 ,
GSM667749 ,
GSM667750 ,
GSM667751 ,
GSM667752 ,
GSM667753 ,
GSM667754 ,
GSM667755 ,
GSM667756 ,
GSM667757 ,
GSM667758 ,
GSM667759 ,
GSM667760 ,
GSM667761 ,
GSM667762 ,
GSM667763 ,
GSM667764 ,
GSM667765 ,
GSM667766 ,
GSM667767 ,
GSM667768 ,
GSM667769 ,
GSM667770 ,
GSM667771 ,
GSM667772 ,
GSM667773 ,
GSM667774 ,
GSM667775 ,
GSM667776 ,
GSM667777 ,
GSM667778 ,
GSM667779 ,
GSM667780 ,
GSM667781 ,
GSM667782 ,
GSM667783 ,
GSM667784 ,
GSM667785 ,
GSM667786 ,
GSM667787 ,
GSM667788 ,
GSM667789 ,
GSM667790 ,
GSM667791 ,
GSM667792 ,
GSM667793 ,
GSM667794 ,
GSM667795 ,
GSM667796 ,
GSM667797 ,
GSM667798 ,
GSM667799 ,
GSM667800 ,
GSM667801 ,
GSM667802 ,
GSM667803 ,
GSM667804 ,
GSM667805 ,
GSM667806 ,
GSM667807 ,
GSM667808 ,
GSM667809 ,
GSM667810 ,
GSM667811 ,
GSM667812 ,
GSM667813 ,
GSM1386905 ,
GSM1386906 ,
GSM1386907 ,
GSM1386908 ,
GSM1509251 ,
GSM1509252 ,
GSM1509253 ,
GSM1509254 ,
GSM1509255 ,
GSM1509256 ,
GSM1509257 Series (6)
GSE15915 Transcription profiling of Brassica lines
GSE23141 Evaluation of the Affymetrix Brassica Exon 1.0 ST array
GSE23409 Comparison of root and leaf samples from Brassica rapa
GSE27052 Expression quantitative trait loci (eQTL) analysis of Brassica rapa under varying soil phosphorus (P) supplies
GSE57697 Brassica napus control vs. heat stress
GSE61598 Brassica napus differentially expressed genes in seeds and silique walls
Relations Alternative to
GPL20168
Data table header descriptions ID GB_LIST gb accession
PT_ACC protien accession
SEQUENCE sequence
ProbeName probe id
GB_ACC gb accession
GeneName gene name
Description description
SPOT_ID spot identifier
Data table ID GB_LIST PT_ACC SEQUENCE ProbeName GB_ACC GeneName Description SPOT_ID 1
GE_BrightCorner
GE_BrightCorner
2
DarkCorner
DarkCorner
3
DarkCorner
DarkCorner
4
Q9M0P0 GTCTCGTCATGTTCCTGACTTCTCATGACAAGTAACACATATATCTGATGTGTTATAATT
B_1007874
DY023795 Putative uncharacterized protein AT4g09530
5
GCGGAACTCGGCTGCTAGTTTGCTTTTCGTTAAAAGACAAATATAATATATATGCAATGT
X_1000035
AI352956 Unknown
6
EE448061 , EE502843 , EE502716 Q94KI8 GTGTTCTACTCCTGATACGTAATATAGCTCGTAAAAAGGTCAAAATCTTGATTCTACTGA
B_1046053
JCVI_10279
Putative calcium channel
7
Q9FKP2 TCGTCGATTACCTCTCCTTACTCTACTGCAACTTCGAAAAGTTTCCACTTTTGGGCCAAT
B_1002675
CD824703 Na/Ca,K-exchanger-like protein
8
EE529079 , CD827748 AAGGTTTGATCCTTGGGTGTTATTGTAGGTTGCTATCCTTGTAACACATGTGGATTTCAT
B_1078619
JCVI_39689
Unknown
9
CTAAGGAGCCGCAAAAAGTTTTTAAAAACCCTTAAGAACCTAGATTATTAAGTCCAAGCT
B_1037671
EV192881 Unknown
10
ES936586 , EV005214 , ES951475 , EE482968 , ES919717 , EV017382 , ES951125 , CN737138 , EE540372 , EX133740 CGGTGTAGTTTCTACCCTTCTACTTATCGTAAGTGGAATTTTCTTTTTTCTGATTGCAGG
B_1055431
JCVI_18733
At3g01435
11
EX091920 , CX190799 , CV546606 , EV018322 , EX101084 Q8H0Z9 GACTTTGGAATCCGAACGCGTAAAAGCATCCATCAGACCAAAACTTATGCTTTATTTTTT
B_1075533
JCVI_3689
Putative uncharacterized protein At5g13090
12
EX136730 , ES911756 , EX122260 , EE567568 Q39254 CAAAATGTTTCTACTACACTGCGCTGCCTTCTCCTGTGGGGTGGTATTGTATCACAAAAA
B_1055245
JCVI_18566
Vacuolar cation/proton exchanger 2 (Ca(2+)/H(+) exchanger 2) (Ca(2+)/H(+) antiporter CAX2)
13
O80845 CTAGGTTTCTTGTTTGAACTAATGTTCTTGGTTTATATCATTACAGAACAAAGAGCGAGC
B_1023804
ES968722 Expressed protein
14
ES907662 , DY003176 , EX098251 , EE507592 , EE548921 , EE552353 , EE544883 , EV084713 , EE523032 Q6DBN8 GTTGTTGCTGTATATTCTCTCTGACTTCTCTTATTCAACAAGGAAGGTTTTGAGTAATCT
B_1056762
JCVI_19932
At5g23610
15
Q0WKV7 GCAACACAGCGTGAGTTTGAGTTGGAAACGGAGCAGAAAAGAAAATCTATTGATGACAGC
B_1027259
EV060006 Putative uncharacterized protein At1g67230
16
EV039854 , AM389964 , CX281097 , DN192321 , AM395027 A2RVQ5 TATTTTAAGTTTCCTCTGCAAAGAACATTGGGTTTGGCGTTTATGCATTGTTCTGGTGAT
B_1059715
JCVI_22601
At3g57230
17
CTTCCAGATCAATGAATTAAAACAAACGAAACTAAATCTGAGTGAGAGACATACCTTTCG
B_1023996
ES976722 Unknown
18
EX088096 , EE400793 , ES912659 , EE477375 , ES948118 , EV187556 , EE563643 Q9CAN4 GTTGAGGCGGTTTTAAAAGTCTTAAAACCGAAGTTTGGTTTGGTTGTAAAAGCTATACTT
B_1072711
JCVI_34337
F-box protein PP2-A11
19
EX080945 , EX080684 Q9RGU1 GAAGCAGCGTCCAAGTAAGACTCTCCTCCTCCATAGATCCTTTATTGTTTTTGCTTAAGA
B_1061337
JCVI_24070
Putative uncharacterized protein
20
A5B4P5 GAGAGCTGCGGAAGTCGCTGGAGGATCAGGGTAATCAAAAACTTGTACATTTGGAAAGAT
X_1008694
EE411718 Putative uncharacterized protein
105072 14823 Kbytes .Supplementary data files not provided
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