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Platform GPL16680 Query DataSets for GPL16680
Status Public on May 09, 2013
Title 101206_Barley_NS_CGH_HX1
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Hordeum vulgare subsp. vulgare
Manufacturer NimbleGen
Manufacture protocol see manufacturer's web site www.nimblegen.com
 
Description Annotation in this record based on whole genome shotgun (WGS) assembly of barley cv. Morex (Assembly1, EMBL-EBI accession no. PRJNA30763).
Probes designed to 200 bp contigs where 10 non-repetitive and unique probes could be design. Contigs at minimum spacing of 500 bp apart.
 
Submission date Feb 13, 2013
Last update date May 09, 2013
Contact name María Muñoz-Amatriaín
E-mail(s) munoz064@umn.edu
Organization name University of Minnesota
Department Agronomy and Plant Genetics
Lab Muehlbauer
Street address 411 Borlaug Hall, 1991Upper Buford Circle
City Saint Paul
State/province MN
ZIP/Postal code 55108
Country USA
 
Samples (19) GSM1082526, GSM1082527, GSM1082528, GSM1082529, GSM1082530, GSM1082531 
Series (1)
GSE44293 Distribution, functional impact and origin mechanisms of copy number variation in the barley genome

Data table header descriptions
ID
SEQUENCE Sequence of oligo
CHROMOSOME Chromosomal location
RANGE_START Chromosomal start position of oligo
LENGTH Oligo length
RANGE_END Chromosomal end position of oligo

Data table
ID SEQUENCE CHROMOSOME RANGE_START LENGTH RANGE_END
CONTIG_100005FS000000061 TCGCCGCCATGGATCCGGCTAGGAGCTCGACGCTCGGGCTCGTAGCTTACGGATCCAGTGGGTTCGCGCGACTGTGAG CONTIG_100005 61 78 138
CONTIG_100005FS000000131 ACTGTGAGGGATGCGGTGCTACTCCAGCCGGCGAGGAGAAGAACATGGCGTCACGGGTTCGGGCGGCGGAAATA CONTIG_100005 131 74 204
CONTIG_100005FS000000141 ATGCGGTGCTACTCCAGCCGGCGAGGAGAAGAACATGGCGTCACGGGTTCGGGCGGCGGAAATAAGAAAGG CONTIG_100005 141 71 211
CONTIG_100005FS000000071 GGATCCGGCTAGGAGCTCGACGCTCGGGCTCGTAGCTTACGGATCCAGTGGGTTCGCGCGACTGTGAGGGATGCGG CONTIG_100005 71 76 146
CONTIG_100005FS000000081 AGGAGCTCGACGCTCGGGCTCGTAGCTTACGGATCCAGTGGGTTCGCGCGACTGTGAGGGATGCGGTGCTACTCCAGC CONTIG_100005 81 78 158
CONTIG_100005FS000000101 CGTAGCTTACGGATCCAGTGGGTTCGCGCGACTGTGAGGGATGCGGTGCTACTCCAGCCGGCGAGGAGAAGAACATG CONTIG_100005 101 77 177
CONTIG_100005FS000000151 ACTCCAGCCGGCGAGGAGAAGAACATGGCGTCACGGGTTCGGGCGGCGGAAATAAGAAAGGGGCACCG CONTIG_100005 151 68 218
CONTIG_100005FS000000121 GGTTCGCGCGACTGTGAGGGATGCGGTGCTACTCCAGCCGGCGAGGAGAAGAACATGGCGTCACGGGTTCGGGCG CONTIG_100005 121 75 195
CONTIG_100005FS000000111 GGATCCAGTGGGTTCGCGCGACTGTGAGGGATGCGGTGCTACTCCAGCCGGCGAGGAGAAGAACATGGCGTCACGGG CONTIG_100005 111 77 187
CONTIG_100005FS000000091 CGCTCGGGCTCGTAGCTTACGGATCCAGTGGGTTCGCGCGACTGTGAGGGATGCGGTGCTACTCCAGCCGGCGAGGA CONTIG_100005 91 77 167
CONTIG_1000066FS000000031 CGAGATGCAAGACCGTGATTTTCAGCTCCGTCGAGTGAGTCAAAATGGCCGGGTGTGTCCTCGTACCATAGACGCTG CONTIG_1000066 31 77 107
CONTIG_1000066FS000000011 TATTGGCAGTAATAGCCCGTCGAGATGCAAGACCGTGATTTTCAGCTCCGTCGAGTGAGTCAAAATGGCCGGGTGTG CONTIG_1000066 11 77 87
CONTIG_1000066FS000000051 TTCAGCTCCGTCGAGTGAGTCAAAATGGCCGGGTGTGTCCTCGTACCATAGACGCTGTTGGAGGTGTGTTTCTT CONTIG_1000066 51 74 124
CONTIG_1000066FS000000021 AATAGCCCGTCGAGATGCAAGACCGTGATTTTCAGCTCCGTCGAGTGAGTCAAAATGGCCGGGTGTGTCCTCGTA CONTIG_1000066 21 75 95
CONTIG_1000066FS000000001 AAGACTTTACTATTGGCAGTAATAGCCCGTCGAGATGCAAGACCGTGATTTTCAGCTCCGTCGAGTGAGTCAAAA CONTIG_1000066 1 75 75
CONTIG_1000066FS000000081 GGGTGTGTCCTCGTACCATAGACGCTGTTGGAGGTGTGTTTCTTTAGCATCTCTACCGTAATTAAGTTTAGC CONTIG_1000066 81 72 152
CONTIG_1000066FS000000121 TCTTTAGCATCTCTACCGTAATTAAGTTTAGCCTCAATGTAGGCACGGTAAGGGTATGTCATGCTGGACTGGGAG CONTIG_1000066 121 75 195
CONTIG_1000066FS000000041 GACCGTGATTTTCAGCTCCGTCGAGTGAGTCAAAATGGCCGGGTGTGTCCTCGTACCATAGACGCTGTTGGAGG CONTIG_1000066 41 74 114
CONTIG_1000066FS000000101 GACGCTGTTGGAGGTGTGTTTCTTTAGCATCTCTACCGTAATTAAGTTTAGCCTCAATGTAGGCACGGTAAG CONTIG_1000066 101 72 172
CONTIG_1000066FS000000111 GAGGTGTGTTTCTTTAGCATCTCTACCGTAATTAAGTTTAGCCTCAATGTAGGCACGGTAAGGGTATGTCATGC CONTIG_1000066 111 74 184

Total number of rows: 2116690

Table truncated, full table size 265953 Kbytes.




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Supplementary file Size Download File type/resource
GPL16680_101206_Barley_NS_CGH_HX1.ncd.gz 264 b (ftp)(http) NCD
GPL16680_101206_Barley_NS_CGH_HX1.ndf.gz 145.7 Mb (ftp)(http) NDF
GPL16680_101206_Barley_NS_CGH_HX1.pos.gz 18.7 Mb (ftp)(http) POS

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