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Barley1 22k Microarray Sequence ID: Barley1_00041 |
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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_00041:
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Expression details for Contig41_at
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Expression details for Contig41_x_at
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GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig41_at
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GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig41_x_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_Os06g04030.1, histone H3, putative, expressed, Expect:3e-66, match=127/127. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• Brachypodium distachyon Alignment at Brachybase:
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| Probe Set Annotation
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Affymetrix annotation, 2009-03-11
BEST BLASTX NR: 11/07/02 NP_195713.1 9e-71 histone H3.3; protein id: At4g40030.1, supported by cDNA: gi_14326561 [Arabidopsis thaliana]
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Annotation via Blast
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• BLASTX UniProt: UniRef90_P59169, Histone H3.3 n=140 Tax=Eukaryota RepID=H33_ARATH, Expect:7e-65, match=127/127. Blast executed on 2012-01-23 against Uniref90 (Release: 2011_12, 14-Dec-2011) show top hits
• BLASTN TIGR Plant Transcript Assemblies: TA30598_4513, Histone H3.3 [Arabidopsis thaliana (Mouse-ear cress)], Expect:0, match=690/690. Blast executed on 2007-10-23 against TIGR TA Hordeum vulgare release 2 show top hits
• BLASTX NCBI Reference Sequence: XP_001752318, histone H3 [Physcomitrella patens subsp. patens], Expect:1e-65, match=127/127. Blast executed on 2010-12-10 against NCBI RefSeq rel-44 show top hits
• BLASTX MSU Rice genome: LOC_Os06g04030.1, histone H3, putative, expressed, Expect:3e-66, match=127/127. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• BLASTN DFCI Hordeum vulgare Gene Index: TC211653, UniRef100_A5BX39 Cluster: Histone H3; n=4; core eudicotyledons|Rep: Histone H3 - Vitis vinifera (Grape), complete, Expect:0, match=813/683. Blast executed on 2010-11-03 against HvGI(DFCI) release 11 show top hits
• BLASTX Brachypodium distachyon genome:
• BLASTX Arabidopsis thaliana genome: AT5G10980.1, | Symbols: | Histone superfamily protein | chr5:3472591-3473349 REVERSE LENGTH=137, Expect:1e-66, match=127/127. Blast executed on 2010-12-10 against Arabidopsis thaliana genome, TAIR release 10 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: 754
>Barley1_00041
CTTGGCCGCCGTCGAGTTCGAGTTCAGACCGAAGCCAAGTTTCCAGGTCGACCAGAGGAG
GCGAGCCATGGCCCGTACCAAGCAGACCGCCCGCAAGTCCACCGGCGGCAAGGCGCCCCG
CAAGCAGCTCGCCACCAAGGCCGCGAGGAAGTCCGCCCCGACCACCGGCGGCGTGAAGAA
GCCGCACAGGTACAGGCCCGGCACCGTGGCGCTCCGCGAGATCCGAAAGTACCAGAAGAG
CACGGAGCTGCTGATCCGCAAGCTGCCCTTCCAGCGCCTGGTCCGCGAGATCGCGCAGGA
CTTCAAGACGGACCTCCGCTTCCAGTCCCACGCCGTGCTCGCCCTCCAGGAGGCCGCCGA
GGCGTACCTCGTGGGGCTCTTCGAGGACACCAACCTCTGCGCCATCCACGCCAAGCGCGT
CACCATCATGCCCAAGGACATCCAGCTCGCCCGCCGCATCCGCGGGGAGCGCGCCTAGGC
GGGAGCCAGACCAGTCCGGCCCCAGTCCGCCGCATCCATCTGAGGGCGTGCCGCCGTTCG
TTCGCCGGCACCAGTTGATTCGCTTGCCGTTTTAGGTCTTGTTAGGTTTGGTTTGCGGTG
ATGCAAACAGATGCTTTCTGTGGAATTGTTGGTTAATGTACTGTTGATCGACCATTATCG
ATGTATGCAATTCTGACGGGACGTACCGTGAAAAAAAAAAAAAAAAAAAAGTTGTCTGCC
GTGCTGTTTTCCTGCTCAAAAAAAAAAAAAAAAA
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