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Status
Public on Jun 06, 2006
Title
Whole Genome, Alternative Splicing Drosophila Chip v3
Technology type
spotted oligonucleotide
Distribution
custom-commercial
Organism
Drosophila melanogaster Manufacturer
Agilent Technologies
Manufacture protocol
Oligonucleotide probes were designed using an approach that utilized the sequences of transcripts without incorporating any a priori knowledge about their exon/intron
Contributor(s)
McIntyre LM Submission date
May 25, 2006
Last update date
Jun 19, 2006
Contact name
Lauren M. McIntyre
E-mail(s)
mcintyre@ufl.edu Phone
(352) 273-8024
Organization name
University of Florida
Department
Dept. of Molecular Genetics and Microbiology
Street address
PO Box 100266; R2-293
City
Gainesville
State/province
FL
ZIP/Postal code
32610-0266
Country
USA
Samples (338)
GSM111773 , GSM111774 , GSM111775 , GSM111776 , GSM111777 , GSM111778
GSM111779 ,
GSM111780 ,
GSM111781 ,
GSM111782 ,
GSM111783 ,
GSM111784 ,
GSM111785 ,
GSM111786 ,
GSM111787 ,
GSM111788 ,
GSM111789 ,
GSM111790 ,
GSM111791 ,
GSM111792 ,
GSM111793 ,
GSM111794 ,
GSM111795 ,
GSM111796 ,
GSM111797 ,
GSM111798 ,
GSM111799 ,
GSM111800 ,
GSM111801 ,
GSM111802 ,
GSM111803 ,
GSM111804 ,
GSM111805 ,
GSM111806 ,
GSM111807 ,
GSM111808 ,
GSM111809 ,
GSM111810 ,
GSM111811 ,
GSM111812 ,
GSM111813 ,
GSM111814 ,
GSM111815 ,
GSM111816 ,
GSM111817 ,
GSM111818 ,
GSM111819 ,
GSM111820 ,
GSM111821 ,
GSM111822 ,
GSM116420 ,
GSM116421 ,
GSM116422 ,
GSM116423 ,
GSM116424 ,
GSM116425 ,
GSM116426 ,
GSM116427 ,
GSM116428 ,
GSM116429 ,
GSM116430 ,
GSM116431 ,
GSM116432 ,
GSM116433 ,
GSM116434 ,
GSM116435 ,
GSM116436 ,
GSM116437 ,
GSM116438 ,
GSM116439 ,
GSM116440 ,
GSM116441 ,
GSM116442 ,
GSM116443 ,
GSM116444 ,
GSM116445 ,
GSM116446 ,
GSM116447 ,
GSM116448 ,
GSM116449 ,
GSM116450 ,
GSM116451 ,
GSM116452 ,
GSM116453 ,
GSM116454 ,
GSM116455 ,
GSM116456 ,
GSM116457 ,
GSM116458 ,
GSM116459 ,
GSM116460 ,
GSM116461 ,
GSM116462 ,
GSM116463 ,
GSM116464 ,
GSM116465 ,
GSM116466 ,
GSM116467 ,
GSM116468 ,
GSM116469 ,
GSM116470 ,
GSM116471 ,
GSM116472 ,
GSM116473 ,
GSM116474 ,
GSM116475 ,
GSM116476 ,
GSM116477 ,
GSM116478 ,
GSM116479 ,
GSM116480 ,
GSM116481 ,
GSM116482 ,
GSM116483 ,
GSM116484 ,
GSM116485 ,
GSM116486 ,
GSM116487 ,
GSM116488 ,
GSM116489 ,
GSM116490 ,
GSM116491 ,
GSM116492 ,
GSM116493 ,
GSM116494 ,
GSM116495 ,
GSM116496 ,
GSM116497 ,
GSM116498 ,
GSM116499 ,
GSM116500 ,
GSM116501 ,
GSM116502 ,
GSM116503 ,
GSM116504 ,
GSM116505 ,
GSM116506 ,
GSM116507 ,
GSM116508 ,
GSM116509 ,
GSM116510 ,
GSM116511 ,
GSM116512 ,
GSM116513 ,
GSM116514 ,
GSM116515 ,
GSM116516 ,
GSM116517 ,
GSM116518 ,
GSM116519 ,
GSM116520 ,
GSM116521 ,
GSM116522 ,
GSM116523 ,
GSM116524 ,
GSM116525 ,
GSM116526 ,
GSM116527 ,
GSM116528 ,
GSM116529 ,
GSM116530 ,
GSM116531 ,
GSM116532 ,
GSM116533 ,
GSM116534 ,
GSM116535 ,
GSM116536 ,
GSM116537 ,
GSM116538 ,
GSM116539 ,
GSM116540 ,
GSM116541 ,
GSM116542 ,
GSM116543 ,
GSM116544 ,
GSM116545 ,
GSM116546 ,
GSM116547 ,
GSM116548 ,
GSM116549 ,
GSM116550 ,
GSM116551 ,
GSM116552 ,
GSM116553 ,
GSM116554 ,
GSM116555 ,
GSM116556 ,
GSM116557 ,
GSM116558 ,
GSM116559 ,
GSM116560 ,
GSM116561 ,
GSM116562 ,
GSM116563 ,
GSM116564 ,
GSM116565 ,
GSM116566 ,
GSM116567 ,
GSM116568 ,
GSM116569 ,
GSM116570 ,
GSM116571 ,
GSM116572 ,
GSM116573 ,
GSM116574 ,
GSM116575 ,
GSM116576 ,
GSM116577 ,
GSM116578 ,
GSM116579 ,
GSM116580 ,
GSM116581 ,
GSM116582 ,
GSM116583 ,
GSM116584 ,
GSM116585 ,
GSM116586 ,
GSM116587 ,
GSM116588 ,
GSM116589 ,
GSM116590 ,
GSM116591 ,
GSM116592 ,
GSM116593 ,
GSM116594 ,
GSM116595 ,
GSM116596 ,
GSM116597 ,
GSM116598 ,
GSM116599 ,
GSM116600 ,
GSM116601 ,
GSM116602 ,
GSM116603 ,
GSM116604 ,
GSM116605 ,
GSM116606 ,
GSM116607 ,
GSM116608 ,
GSM116609 ,
GSM116610 ,
GSM116611 ,
GSM116612 ,
GSM116613 ,
GSM116614 ,
GSM116615 ,
GSM116616 ,
GSM116617 ,
GSM116618 ,
GSM116619 ,
GSM116620 ,
GSM116621 ,
GSM116622 ,
GSM116623 ,
GSM116624 ,
GSM116625 ,
GSM116626 ,
GSM116627 ,
GSM116628 ,
GSM116629 ,
GSM116630 ,
GSM116631 ,
GSM116632 ,
GSM116633 ,
GSM116634 ,
GSM116635 ,
GSM116636 ,
GSM116637 ,
GSM116638 ,
GSM116639 ,
GSM116640 ,
GSM116641 ,
GSM116642 ,
GSM116643 ,
GSM116644 ,
GSM116645 ,
GSM116646 ,
GSM116647 ,
GSM116648 ,
GSM116649 ,
GSM116650 ,
GSM116651 ,
GSM116652 ,
GSM116653 ,
GSM116654 ,
GSM116655 ,
GSM116656 ,
GSM116657 ,
GSM116658 ,
GSM116659 ,
GSM116660 ,
GSM116661 ,
GSM116662 ,
GSM116663 ,
GSM116664 ,
GSM116665 ,
GSM116666 ,
GSM116667 ,
GSM116668 ,
GSM116669 ,
GSM116670 ,
GSM116671 ,
GSM116672 ,
GSM116673 ,
GSM116674 ,
GSM116675 ,
GSM116676 ,
GSM116677 ,
GSM116678 ,
GSM116679 ,
GSM116680 ,
GSM116681 ,
GSM116682 ,
GSM116683 ,
GSM116684 ,
GSM116685 ,
GSM116686 ,
GSM116687 ,
GSM116688 ,
GSM116689 ,
GSM116690 ,
GSM116691 ,
GSM116692 ,
GSM116693 ,
GSM116694 ,
GSM116695 ,
GSM116696 ,
GSM116697 ,
GSM116698 ,
GSM116699 ,
GSM116700 ,
GSM116701 ,
GSM116702 ,
GSM116703 ,
GSM116704 ,
GSM116705 ,
GSM116706 ,
GSM116707 Series (2)
GSE4976 Sex and line specific gene expression and alternative splicing in Drosophila revealed
GSE5181 Quantitative Genomics study of sex dimorphism in D. Melanogaster
Data table header descriptions ID unique id for every spot
SEQUENCE the genetic sequence of the chip
con identifies if a control is positive or negative
row the row in which the probe is located
column the column in which the probed is located
probeuid the unique identifier for custom-designed probes
actuals the CG number of the probe as determined by FlyBase
gene the gene on which the probe is located as determined by FlyBase
cellular_components the cellular components of the probe as determined by FlyBase
biological_processes the biological processes in which the probe is involved as determined by FlyBase
molecular_functions the molecular functions of the probe as determined by FlyBase
flybase the identifier of the probe as assigned by FlyBase
protein_domains the protein domains as determined by FlyBase
ch the chromosome on which the probe is located as determined by FlyBase
biosequence_type this is a spotted oligo (60mer) chip
SPOT_ID spot identifier for control spots
reporter_usage identifies if the probe is a control or experimental
Data table ID SEQUENCE con row column probeuid actuals gene cellular_components biological_processes molecular_functions flybase protein_domains ch biosequence_type SPOT_ID reporter_usage 1
pos
1
1
spotted oligo
--control: pos
Control
2
neg
1
2
spotted oligo
--control: neg
Control
3
GCCAGTCGAGAACGGATGTTCCTCTACGAGTTTCTAATCTATCATCTGAAAGTATTTGAT
-
1
3
2
CG3119-RA
CG3119
FBgn0031466 - FBan0003119
2L
spotted oligo
Experimental
4
AAGATAAAGAAAGCCGTCACAGACTTTACATCGGACATTACTTATAATCCTGGCAAGCGT
-
1
4
3
CG7441-RA
CG7441
tryptophan-tRNA ligase activity
FBgn0036763 - FBan0007441 - FBgn0046314
3L
spotted oligo
Experimental
5
GGATGGGTACATCATCTACTGCTACGGCGACTGCAACCGAAAGTTCGAGGAGGCGCTGAT
-
1
5
4
CG12065-RB CG12065-RA
CG12065
FBgn0030052 - FBan0012065
X
spotted oligo
Experimental
6
pos
1
6
spotted oligo
--control: pos
Control
7
pos
1
7
spotted oligo
--control: pos
Control
8
CTACTACAAGTACAAGAGCTACTCCAACTACGGCCACTTCGACTACACCTTCTTCAACGA
-
1
8
7
CG4178-RA
Lsp1beta
nutrient reservoir activity
CG4178 - FBgn0002563 - FBan0004178
IPR000896 == Arthropod hemocyanin/insect LSP IPR005203 == Hemocyanin C-terminal IPR005204 == Hemocyanin N-terminal IPR008922 == Di-copper center-containing
2L
spotted oligo
Experimental
9
GATGTACCATGAGTACAAATGCTGGGAGCGAGTAAATGGGAATAAGCTAGTGGAGGACAA
-
1
9
8
CG31557-RA
Obp83ef
odorant binding
FBgn0037401 - FBan0031557 - FBgn0046876 - FBgn0051557
IPR006170 == Pheromone/general odorant binding protein PBP/GOBP IPR006625 == Insect pheromone/odorant binding protein PhBP
3R
spotted oligo
Experimental
10
AGTTGAGGATTCTACCCTAAAATTTAACCGCAAGATCTCCGATCTTATGTCCAACTTCGT
-
1
10
9
CG13125-RB CG13125-RA
CG13125
protein phosphatase type 1 regulator activity
FBan0013125 - FBgn0032163
IPR001611 == Leucine-rich repeat IPR007092 == Leucine-rich repeat SDS22+-like
2L
spotted oligo
Experimental
11
ATGCCAATTTATTCAACAATGGCAGACACAATCTGGATGCCAAGGTCTTTGCTTCGCAAA
-
1
11
10
CG10146-RA
AttA
antibacterial humoral response (sensu Protostomia) - defense response to bacteria - defense response to Gram-negative bacteria
FBgn0064916 - FBan0010146 - FBgn0012042
IPR005520 == Attacin N-terminal region IPR005521 == Attacin C-terminal region
2R
spotted oligo
Experimental
12
GGCTTCTTCAATCTAGCCTACTCCATAAAGCTGAATACTAAGCGTATGAAGAAGATGGAA
-
1
12
11
CG11727-RA CG11727-RB
CG11727
cell cycle - chromosome segregation - mitosis - regulation of cell cycle
small GTPase regulatory/interacting protein activity
FBgn0047215 - FBgn0030299 - FBan0011727 - FBgn0046801
IPR000195 == RabGAP/TBC
X
spotted oligo
Experimental
13
GAGAAGGTAGCCAGCGATAGTGTTAGCAACAATGAGAATCAGATCAAAGAGTTGAACTAT
-
1
13
12
CG32684-RB
alpha-Man-I
N-linked glycosylation
FBgn0052684 - FBan0032684 - FBgn0042224 - FBgn0010338
IPR001382 == Glycoside hydrolase family 47
X
spotted oligo
Experimental
14
pos
1
14
spotted oligo
--control: pos
Control
15
CAGTGCCATATGTTATCTGCGACTGTGACCTACACCAATATTTCTGAGAATGCTGCTGTT
-
1
15
13
spotted oligo
Experimental
16
TTTGGAGCTACCTTTGGTGTAAAGAAGGCTGGGGATCTAACTAGCGTACAGGTTAAGATT
-
1
16
14
CG8824-RB CG8824-RC
fdl
brain development - polysaccharide metabolism
beta-N-acetylhexosaminidase activity - hydrolase activity hydrolyzing N-glycosyl compounds
FBgn0045063 - FBan0008824 - FBgn0021791 - FBgn0033745
2R
spotted oligo
Experimental
17
AGAACAAGTCCATGAAAACCTCAAAGTTATATGTTATTAAGAGAGATGGCAGGCAGGAGG
-
1
17
15
CG5371-RA
RnrL
DNA replication - purine base metabolism - pyrimidine base metabolism
CG5371 - FBan0005371 - FBgn0026773 - FBgn0011703 - FBgn0022117
IPR000788 == Ribonucleotide reductase large subunit IPR005144 == ATP-cone IPR008926 == Ribonucleotide reductase R1 subunit N-terminal
2L
spotted oligo
Experimental
18
TCCTGCGCTCCCAGAAGCCCGCCCCCGTCAAGGGAAAGAAGGCCGAGTTTGCTAAGGGAA
-
1
18
16
CG12740-RC CG12740-RB CG12740-RD CG12740-RA
RpL28
protein biosynthesis
nucleic acid binding - structural constituent of ribosome
FBgn0035422 - FBan0012740 - FBgn0063278
3L
spotted oligo
Experimental
19
ACAGCCACGATCACGGTCATTCGCACGGCGGATTCGAAGAGGTCAAGACCATCAAGGTCA
-
1
19
17
CG15731-RA
CG15731
FBgn0030390 - FBan0015731
X
spotted oligo
Experimental
20
AACGCCGCAGTTGAATTGCGGGCAGTACACGTTCAACAAGACCTACTGCATCCCTCCGCA
-
1
20
18
CG12654-RA
CG12654
low-density lipoprotein receptor activity
FBgn0030131 - FBan0012654
X
spotted oligo
Experimental
22575 5206 Kbytes .Supplementary data files not provided
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