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Barley1 22k Microarray Sequence ID: Barley1_00018 |
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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_00018:
Expression details for Contig18_s_at
GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig18_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_Os07g12080.1, LTPL169 - Protease inhibitor/seed storage/LTP family protein precursor, expressed, Expect:4e-25, match=65/146. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• Brachypodium distachyon Alignment at Brachybase: Bradi1g53970.1, , Expect:4e-16, match=54/131. Blast executed on 2010-11-03 against Brachypodium distachyon genome, Brachybase release 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 P32936 9e-87 Alpha-amylase/trypsin inhibitor CMb precursor (Chloroform/methanol-soluble protein CMb)
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Annotation via Blast
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• BLASTX UniProt: UniRef90_P32936, Alpha-amylase/trypsin inhibitor CMb n=5 Tax=Triticeae RepID=IAAB_HORVU, Expect:8e-85, match=149/150. Blast executed on 2012-01-23 against Uniref90 (Release: 2011_12, 14-Dec-2011) show top hits
• BLASTN TIGR Plant Transcript Assemblies: TA29484_4513, Alpha-amylase/trypsin inhibitor CMb precursor [Hordeum vulgare (Barley)], Expect:0, match=635/635. Blast executed on 2007-10-23 against TIGR TA Hordeum vulgare release 2 show top hits
• BLASTX NCBI Reference Sequence: NP_001059199, Os07g0222000 [Oryza sativa Japonica Group], Expect:2e-24, match=65/146. Blast executed on 2010-12-10 against NCBI RefSeq rel-44 show top hits
• BLASTX MSU Rice genome: LOC_Os07g12080.1, LTPL169 - Protease inhibitor/seed storage/LTP family protein precursor, expressed, Expect:4e-25, match=65/146. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• BLASTN DFCI Hordeum vulgare Gene Index: TC234547, UniRef100_P32936 Cluster: Alpha-amylase/trypsin inhibitor CMb precursor; n=2; Hordeum vulgare|Rep: Alpha-amylase/trypsin inhibitor CMb precursor - Hordeum vulgare (Barley), partial (96%), Expect:0, match=1000/624. Blast executed on 2010-11-03 against HvGI(DFCI) release 11 show top hits
• BLASTX Brachypodium distachyon genome: Bradi1g53970.1, , Expect:4e-16, match=54/131. Blast executed on 2010-11-03 against Brachypodium distachyon genome, Brachybase release 1 show top hits
• BLASTX Arabidopsis thaliana genome: No 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: 662
>Barley1_00018
GTGCATTGCAAAAAAGAAACTACACCAACGAACTTGGCCTCCATCCAAAAATATGGCGTC
CAAGTCCAGCTGCGATCTCCTCTTGGCCGCCGTCCTAGTCTCCATCTTTGCCGCCGTTGC
CGCCGTCGGCAGCGAAGATTGCACCCCATGGACGGCTACTCCGATCACTCCACTCCCAAG
TTGCCGCGACTATGTGGAACAGCAAGCATGTCGCATCGAAACGCCCGGGCCGCCGTACCT
CGCCAAGCAGCAGTGCTGCGGGGAGCTTGCAAACATCCCGCAGCAGTGCCGATGCCAAGC
GTTGCGCTTCTTCATGGGGCGGAAATCTCGTCCCGATCAGAGCGGCCTCATGGAACTCCC
CGGGTGCCCTAGGGAGGTGCAGATGGACTTCGTCAGGATACTCGTCACGCCGGGGTTCTG
CAACTTGACGACCGTTCACAACACTCCATACTGCCTCGCCATGGATGAGTGGCAGTGGAA
CTAGAGACAATTCTGTAGCTCATGAATAAATAAGCATGTTGCGACCATACATGTGCGTGA
CATGCATATATACATATATGAGCTCCTCGCGCTCATCATGTGTGGCGCTATGTGTTATAT
ATGGATAAGAATAAAGGGAGTCTTTTCGGGGTCGCTTCTTAAAAAAAAAAAAAAAAAAAA
AA
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