NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Platform GPL11427 Query DataSets for GPL11427
Status Public on Jan 13, 2011
Title JCVI PFGRC Corona virus 3K v1 array designed primarily based on strain CV777
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Betacoronavirus
Manufacturer JCVI PFGRC
Manufacture protocol QCV, with arrayer LUCIDEA, mode Normal, replicates 4, repeats 1, slide_dips 38, machine cycles 2725523, pen id 0, pen cycles -1, operator microarray, humidity control On, humidity set point65
Coating Epoxy
 
Description This set includes 263 oligonucleotides, has 3456 spots distributed in 96 blocks.
 
Web link http://pfgrc.jcvi.org/descriptionPages.shtml
Submission date Jan 11, 2011
Last update date Jan 13, 2011
Contact name PFGRC JCVI
E-mail(s) jli@jcvi.org
Phone 3017957840
Organization name J. Craig Venter Institute
Department PFGRC
Street address 9704 Medical Center Drive
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
 

Data table header descriptions
ID Unique identification of each oligo
SEQUENCE Oligo sequence
GC% GC content of the sequence
Internal Repeat Score Internal repeat score
Self-Annealing Score Self-anneal score
Primary Strain The strain of primary target
Primary Target Locus primarily hit by the oligo
Common Name of Primary Target Common name of primary target
Gene Symbol Gene symbol
Strain 229E Target map of strain 229E
Strain Beaudette Target map of strain Beaudette
Strain BCoV-ENT Target map of strain BCoV-ENT
Strain Purdue Target map of strain Purdue
Strain MHV-A59 Target map of strain MHV-A59
Strain ATCC_VR-759 Target map of strain ATCC_VR-759
Strain CV777 Target map of strain CV777
Strain Tor2 Target map of strain Tor2
ORF
SPOT_ID

Data table
ID SEQUENCE GC% Internal Repeat Score Self-Annealing Score Primary Strain Primary Target Common Name of Primary Target Gene Symbol Strain 229E Strain Beaudette Strain BCoV-ENT Strain Purdue Strain MHV-A59 Strain ATCC_VR-759 Strain CV777 Strain Tor2 ORF SPOT_ID
QCV00001_A_1 TGTAATCCCAGATTACATCGATGTTAACAAAACACTTGATGAGATTTTAGCTTCTCTGCCCAATAGAACT 35.71 29 80 CV777 PEDVgp2 spike protein PEDVgp2::70::100.0::2.5E-12::+ PEDVgp2
QCV00001_A_10 TATAACGAAGAAATATTGAAAACGAATTCGGGTTATTGGAAAGAAACTGTATCCAACACACCAATCATTG Control At1g02210 At1g02210 --At1g02210
QCV00001_A_11 AGCTTCCAGGTCAACTGGGTCTTTTTCGCTTTCAGCATCCTTATGGCTTGCATCACTCTTATGCTGTGGA 47.14 30 80 CV777 PEDVgp5 membrane protein PEDVgp5::70::100.0::3.1E-13::+ PEDVgp5
QCV00001_A_12 TGCTGTATGAGTCACTCGATCAAGTCGCTTATATCTGGTTACGGTGCGAATTCAACAGTGTATGAGCTAG Control At1g03020 At1g03020 --At1g03020
QCV00001_A_13 TAACGGTTCTATTCCCGTTGATGAGGTGATTGAACACCTTAGAAACTGGAATTTCACATGGAATATCATA 37.14 30 121 CV777 PEDVgp5 membrane protein PEDVgp5::70::100.0::3.1E-13::+ PEDVgp5
QCV00001_A_14 TACAATGAATCTTATTTGGCCACAACATCTGGGTGATATTCCTCTGATACAGCAAGCTATGAAACGAGCC Control At1g03660 At1g03660 --At1g03660
QCV00001_A_15 AAAAATACACCTAAGAAGAACAAATCCAGGGCCACTTCGAAGGAACGTGACCTCAAAGACATCCCAGAGT 44.29 30 68 CV777 PEDVgp6 nucleocapsid protein PEDVgp6::70::100.0::1.6E-12::+ PEDVgp6
QCV00001_A_16 GCAAGTTTTTGAGTTTGAGTACTTGGACGATAGCGTTTTGGATGAACTTCTTGAATATGGAGAGAACTAT Control At1g04370 At1g04370 --At1g04370
QCV00001_A_17 AATAGGTCTAGATCTCCAAGTAACAACAGAGGCAATAACCAGTCCCGTGGTAATTCACAGAATCGTGGAA 42.86 30 78 CV777 PEDVgp6 nucleocapsid protein PEDVgp6::70::100.0::1.6E-12::+ PEDVgp6
QCV00001_A_18 TAAGTACAAGAATCTTGTGTCGGACACGGATCAATCTAAACGGTTAGTCGAAGTCATCTCAGCCGACGAA Control At1g06340 At1g06340 --At1g06340
QCV00001_A_19 GAGGCCGCCGCTAGTGGATTTATGCAATGCCGTTTTGTGTCCCTCGATCTCGCTGACACTGTTGAGGGAT 54.29 29 68 CV777 PEDVgp1 Pol1 PEDVgp1::70::100.0::2.8E-12::+ PEDVgp1
QCV00001_A_2 AGATGATGATGTTAACTGGAACAGAGGCAGCAGTAATTGATGATCTAACAGACATTGACATCAGGCAACC Control At1g02490 At1g02490 --At1g02490
QCV00001_A_20 AAAATTACTATGGAGCGGCTGTGGCAGTAGAAAGCTTTTCGGTGATGAAGCTGTTCGTGTTTGGAGTTAT Control At1g02405 At1g02405 --At1g02405
QCV00001_A_21 CTAAAGCTTTATTGGTTCAAAGTTCTTGGTAAGTTTAGTCTGGGTATTTATGCATTGTATGCATTACTAT 31.43 30 71 CV777 PEDVgp1 Pol1 PEDVgp1::70::100.0::2.8E-12::+ PEDVgp1
QCV00001_A_22 TGGAATAGATGCATTCGAGGCTCAGTTCTTGGTCAATGACTTGATTTTGTACGTTAATAAGACGACACGA Control At1g05330 At1g05330 --At1g05330
QCV00001_A_23 CTGTGTTACTTTAGATTGTGCAAATATGATTTCTATTACTATGGTAGTATTGCCATTTGATGGTGATGCT 32.86 30 71 CV777 PEDVgp1 Pol1 PEDVgp1::70::100.0::2.8E-12::+ PEDVgp1
QCV00001_A_24 ATTATCTTGAGATACTTCCCCATACTGTGTAACAGCACATCTTAATTTCCCTAGTTGGAGTATATATGTA Control At1g06430 At1g06430 --At1g06430
QCV00001_A_3 ATATAGTGGGTGTTATTTCTAGTTTGTCTAACTCCACTTTTAACAATACTAGGGAGTTGCCTGGTTTCTT 35.71 30 76 CV777 PEDVgp2 spike protein PEDVgp2::70::100.0::2.5E-12::+ PEDVgp2
QCV00001_A_4 AACTGGGGACCTAATCTATCTGGCAAAGCCTTTTACTTACCTTAATGGCCAAAGTCTTTCCATTCAAAAT Control At1g02320 At1g02320 --At1g02320
QCV00001_A_5 AACTCTTTTGTTGCTTTCGTTAGTAACATTGACTTGTATCTAGCTATACGTGGGCGGCAAGAAGCTGACC 42.86 30 83 CV777 PEDVgp3 hypothetical protein PEDVgp3::70::100.0::2.9E-13::+ PEDVgp3

Total number of rows: 743

Table truncated, full table size 115 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap