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microarray data publicly available to researchers world-wide...
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Barley1 22k Microarray Sequence ID: Barley1_01637 |
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Sequence Type
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Exemplar sequence
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Probe Set Details
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Probe Sequences & Alignment
- Probe sets for Barley1_01637:
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Expression details for Contig1637_at
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Expression details for Contig1637_s_at
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GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig1637_at
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GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig1637_s_at
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Alignments and Assemblies
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• Barley1 GeneChip Assembly
• Barley1 GeneChip Assembly 25 contig and alignment
• PlantGDB PUT assemblies
• GrainGenes Blast
• HarvEST: Barley 21 Assembly
• HarvEST: Barley 25 Assembly
• HarvEST BLAST
• PLEXdb Blast
• TAIR Blast
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Model Genome Alignments
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• Rice Alignment at Gramene (by locus name): LOC_Os01g71670.1, glycosyl hydrolases family 17, putative, expressed, Expect:1e-120, match=334/220. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
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Probe Set Annotation
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Affymetrix annotation, 2009-03-11
BEST BLASTX NR: 11/06/02 D38664 e-162 glucan endo-1,3-beta-D-glucosidase (EC 3.2.1.39) precursor - barley gb|AAA32939.1| (M62907) (1-3)-beta-glucanase [Hordeum vulgare]
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Annotation via Blast
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• BLASTX UniProt: UniRef90_P15737, Glucan endo-1,3-beta-glucosidase GII n=12 Tax=Triticeae RepID=E13B_HORVU, Expect:1e-154, match=334/281. Blast executed on 2009-07-02 against Uniref90 (July '09) show top hits
• BLASTN TIGR Plant Transcript Assemblies: TA28545_4513, Putative endo-1,3-beta-glucanase [Oryza sativa (japonica cultivar-group)], Expect:0, match=1084/1088. Blast executed on 2007-10-23 against TIGR TA Hordeum vulgare release 2 show top hits
• BLASTX Rice genome: LOC_Os01g71670.1, glycosyl hydrolases family 17, putative, expressed, Expect:1e-120, match=334/220. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• BLASTX NCBI Reference Sequence:
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Subject Sequence Description
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Expect
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Identity/Match
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Identity%
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HSP
Details
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NP_001045372:Os01g0944700 [Oryza sativa (japonica cultivar-group)]
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1e-119 |
334/220
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22.1
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view
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NP_001045358:Os01g0941200 [Oryza sativa (japonica cultivar-group)]
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1e-114 |
334/214
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21.4
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view
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NP_001140332:hypothetical protein LOC100272379 [Zea mays]
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1e-108 |
340/205
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21.8
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view
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NP_001045388:Os01g0947000 [Oryza sativa (japonica cultivar-group)]
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1e-105 |
632/198
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63.9
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view
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NP_001044052:Os01g0713200 [Oryza sativa (japonica cultivar-group)]
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1e-101 |
338/197
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19.7
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view
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show best hit only
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• BLASTN DFCI Hordeum vulgare Gene Index: TC153983, UniRef100_Q8S3U1 Cluster: Beta-1,3-glucanase; n=1; Hordeum vulgare subsp. vulgare|Rep: Beta-1,3-glucanase - Hordeum vulgare var. distichum (Two-rowed barley), complete, Expect:0, match=1238/1229. Blast executed on 2009-09-13 against HvGI(DFCI) release 10 show top hits
• BLASTX Arabidopsis thaliana genome: AT4G16260.1, | Symbols: | catalytic/ cation binding / hydrolase, hydrolyzing O-glycosyl compounds | chr4:9200180-9201441 REVERSE, Expect:8e-62, match=344/141. Blast executed on 2009-09-01 against Arabidopsis thaliana genome, TAIR release 9 show top hits
Barley1 exemplars are kindly provided by Dr. Timothy Close from HarvEST:Barley. The BLASTs in this section are based on contig assembly #25.
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Additional Annotations
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No additional annotations found for this probe set.
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Sequence
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Total length: 1244
>Barley1_01637
CTCTACCGCAGCATTGCATAGCATTTGAGTACCAGATACTCCATGTGTGCAGCAATGGCT
AGAAAAGATGTTGCCTCCATGTTTGCAGCTGCTCTCTTCATTGGAGCGTTCGCTGCTGTT
CCTACGAGTGTGCAGTCCATCGGCGTGTGCTACGGCGTGATCGGCAACAACCTCCCCTCC
CGGAGCGACGTGGTGCAGCTCTACAGGTCCAAGGGCATCAACGGCATGCGCATCTACTTC
GCCGACGGGCAGGCCCTCTCGGCGCTCCGCAACTCCGGCATCGGCCTCATCCTCGACATC
GGCAACGACCAGCTCGCCAACATCGCCGCCAGCACCTCCAACGCGGCCTCCTGGGTCCAG
AACAACGTGCGGCCCTACTACCCTGCCGTGAACATCAAGTACATCGCCGCCGGCAACGAG
GTGCAGGGCGGCGCCACGCAGAGCATCCTGCCGGCCATGCGCAACCTCAACGCGGCCCTC
TCCGCGGCGGGGCTCGGCGCCATCAAGGTGTCCACCTCCATCCGGTTCGACGAGGTGGCC
AACTCCTTCCCGCCCTCCGCCGGCGTGTTCAAGAACGCCTACATGACGGACGTGGCCCGG
CTCCTGGCGAGCACCGGCGCGCCGCTGCTGGCCAACGTCTACCCCTACTTCGCGTACCGT
GACAACCCCGGGAGCATCAGCCTGAACTACGCGACGTTCCAGCCGGGCACCACCGTGCGT
GACCAGAACAACGGGCTGACCTACACGTCCCTGTTCGACGCGATGGTGGACGCCGTGTAC
GCGGCGCTGGAGAAGGCCGGCGCGCCGGCGGTGAAGGTGGTGGTGTCGGAGAGCGGGTGG
CCGTCGGCGGGCGGGTTTGCGGCGTCGGCCGGCAATGCGCGGACGTACAACCAGGGGCTG
ATCAACCACGTCGGCGGGGGCACGCCCAAGAAGCGGGAGGCGCTGGAGACGTACATCTTC
GCCATGTTCAACGAGAACCAGAAGACCGGGGACGCCACGGAGAGGAGCTTCGGGCTCTTC
AACCCGGACAAGTCGCCGGCATACAACATCCAGTTCTAGTACGTGTAGCTACCTAGCTCA
CATACCTAAATAAATAAGCTGCACGTACGTACGTAATGCGGCATCCAAGTGTAACGTAGA
CACGTACATTCATCCATGGAAGAGTGCAACCAAGCATGCGTTAACTTCCTGGTGATGATA
CATCATCATGGTATGAATAAAAGATATGGAAGATGTTATGAATT
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