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Barley1 22k Microarray Sequence ID: Barley1_00059 |
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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_00059:
Expression details for Contig59_x_at
GENE EXPRESSION VARIATION IN EXPERIMENTS for Contig59_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_Os10g39410.1, Core histone H2A/H2B/H3/H4 domain containing protein, putative, expressed, Expect:3e-42, match=85/85. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• Brachypodium distachyon Alignment at Brachybase: Bradi5g19360.1, , Expect:1e-42, match=85/85. 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: 11/04/02 HSWT41 1e-48 histone H4 (TH091) - wheat gb|AAA34292.1| histone H4
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Annotation via Blast
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• BLASTX UniProt: UniRef90_P59259, Histone H4 n=123 Tax=Eukaryota RepID=H4_ARATH, Expect:6e-41, match=85/85. Blast executed on 2012-01-23 against Uniref90 (Release: 2011_12, 14-Dec-2011) show top hits
• BLASTN TIGR Plant Transcript Assemblies: TA29551_4513, Homolog of Homo sapiens "Histone 1, H2ai [Takifugu rubripes], Expect:0, match=620/620. Blast executed on 2007-10-23 against TIGR TA Hordeum vulgare release 2 show top hits
• BLASTX NCBI Reference Sequence: XP_001783818, histone H4 [Physcomitrella patens subsp. patens], Expect:1e-41, match=85/85. Blast executed on 2010-12-10 against NCBI RefSeq rel-44 show top hits
• BLASTX MSU Rice genome: LOC_Os10g39410.1, Core histone H2A/H2B/H3/H4 domain containing protein, putative, expressed, Expect:3e-42, match=85/85. Blast executed on 2009-08-30 against Rice genome, TIGR release 6.1 show top hits
• BLASTN DFCI Hordeum vulgare Gene Index:
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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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TC211853:homologue to UniRef100_UPI00004BF7E8 Cluster: Histone H4; n=3; Canis lupus familiaris|Rep: Histone H4 - Canis familiaris, partial (97%)
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0 |
863/611
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98.1
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view
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TC213530:homologue to UniRef100_UPI00004BF7E8 Cluster: Histone H4; n=3; Canis lupus familiaris|Rep: Histone H4 - Canis familiaris, partial (97%)
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891/587
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97.2
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view
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TC218842:homologue to UniRef100_UPI0000EB00D9 Cluster: Histone H4; n=1; Canis lupus familiaris|Rep: Histone H4 - Canis familiaris, partial (96%)
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0 |
1039/584
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93.9
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view
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TC226745:homologue to UniRef100_UPI0000EB00D9 Cluster: Histone H4; n=1; Canis lupus familiaris|Rep: Histone H4 - Canis familiaris, partial (96%)
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0 |
547/516
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94
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view
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TC229934:homologue to UniRef100_UPI00004BF7E8 Cluster: Histone H4; n=3; Canis lupus familiaris|Rep: Histone H4 - Canis familiaris, partial (97%)
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0 |
511/464
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98.3
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view
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show best hit only
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• BLASTX Brachypodium distachyon genome: Bradi5g19360.1, , Expect:1e-42, match=85/85. Blast executed on 2010-11-03 against Brachypodium distachyon genome, Brachybase release 1 show top hits
• BLASTX Arabidopsis thaliana genome: AT5G59970.1, | Symbols: | Histone superfamily protein | chr5:24146352-24146663 REVERSE LENGTH=104, Expect:1e-42, match=85/85. 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: 624
>Barley1_00059
GTCACCACCACCGTACCTCAGATTCCACATCCGCTCGCTCGCTCGCTCACAGGTCGAGAT
CGTCAGCCATGTCCGGGCGCGGCAAGGGAGGCAAGGGGCTCGGCAAGGGCGGCGCCAAGC
GCCACCGGAAGGTGCTGCGCGACAACATCCAGGGCATCACCAAGCCGGCGATCCGGCGGC
TGGCTCGCCGTGGCGGCGTGAAGCGCATCTCGGGGCTCATCTACGAGGAGACCCGCGGCG
TGCTCAAGATCTTCCTCGAGAACGTCATCCGCGACGCCGTCACCTACACCGAGCACGCCC
GCCGCAAGACCGTCACCGCCATGGACGTCGTCTACGCGCTCAAGCGCCAGGGCCGCACCC
TCTACGGATTCGGCGGCTAGGCCACCGGACCACCAGCTAGCTTTGTTTGGCGCACCGCGG
TAGTAGTGTTCGTGGCCGGTCCTTGGGTGTAATCGCCGCATCTCGCTGCTGTTTGCCCTG
GCCTTGTTTAGTTTGTCGTCTGGATGTGCTAGGATGGAATGGAAACTGTAGCGGTTTGTT
TACCCTTGAATTCTTGTGTGATCCGTGTTGCCTGTCGATGTCTGTTCGTGCAAGTGGTCA
GATATTAACCGTGTTCTTCAGTTG
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