Rice GeneChip Exemplar: Os.10220.1.S1_at
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Name
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Date last modified
| 2005-01-10 |
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Sequence Type
| Consensus sequence from Os.10220.1
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Probe Sets
| Probe Sequences & Alignment
Probe sets from Os.10220.1.S1_at:
1. Os.10220.1.S1_at: Expression Details Probe-Level Intensity
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| Rice Genome Alignment | Genome Alignment at Gramene
On the Gramene entry page, under the "Location of hits" section, select one of the locations to go to the genome browser (ContigView) page, then under "Detailed view" section, select "arrays" menu and check the platforms to be displayed. |
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BLAST and EST alignment
Plant Sequence BLAST | 1. BarleyBase Blast 2. NCBI BLAST 3. EBI BLAST 4. GrainGenes BLAST 5. Gramene BLAST 6. TAIR BLAST |
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| Annotation |
1. BEST BLASTX UniProt:
BLASTX result for this exemplar against UniProt will be available soon. You may try BLAST at EBI
2. BEST BLASTN TIGR Rice Gene Index: TC250680, UP|Q7X993 (Q7X993) BZIP transcription factor, complete Length = 2209, Expect: 0, match=2189/2196. It may represent same contig. more
3. BEST TBLASTX Barley1 GeneChip Exemplar: Barley1_05907, Contig5907 (9 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 1308, Expect= 0, match=215/232 aa. more
4. BEST TBLASTX ATH1 GeneChip Exemplar: 250671_at, ; |At5g06950; transcription factor HBP-1b homolog (sp|P43273) ; supported by cDNA: gi_217826_dbj_D10042.1_ATHAHBP1B Length = 993, Expect= 0, match=242/322 aa.
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BLAST Details |
BLASTX vs ATH1 Exemplars | | # | Species | Subject Sequence Description | Expect | Identity/Match | Identity% | HSP
Details | | 1 | arabidopsis | 250671_at:; |At5g06950; transcription factor HBP-1b homolog (sp|P43273) ; supported by cDNA: gi_217826_dbj_D10042.1_ATHAHBP1B Length = 993 | 0 | 242/322 | 75 | View | | 2 | arabidopsis | 256269_at:; |At3g12250; transcription factor HBP-1B-like nearly identical to transcription factor HBP-1B SP:P43273 [Arabidopsis thaliana (Mouse-ear cress)]; supported by cDNA: gi_903687_gb_L42327.1_ATHLEZI Length = 975 | 0 | 231/304 | 75 | View | | 3 | arabidopsis | 250655_at:; |At5g06960; transcription factor HBP-1b (gb|AAD24395.1) Length = 993 | 0 | 223/300 | 74 | View | | 4 | arabidopsis | 262278_at:; |At1g68640; transcription factor PERIANTHIA identical to transcription factor PERIANTHIA GB:AAD19660 GI:4378757 from [Arabidopsis thaliana] Length = 1359 | 0 | 162/233 | 69 | View | | 5 | arabidopsis | 250701_at:; |At5g06840; bZIP transcription factor-like protein Length = 942 | 0 | 81/136 | 59 | View |
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| Nucleotide Sequence |
Total length: 2207
>Os.10220.1.S1_at gb|AB051295.1
ctctctccacctcctccactctcccaccacnacgagaccttctcgangcttcctcccccc
caaaccccttccgctcctcctcctcctcccaaatccaccacggcgacgccgccgccgcag
agcccctagctcccggaggtccctcgcccccgccagctccgacggcctcacggaaggagg
agtaacgtgggcgttgattggatttttttgttttccccccaccttgagtgagtctgtgcc
gtttccccggcggcgagggagggcagagggctgatcatggtcgtgcgccgccggtgcctt
gccgagatttcccccaaccgccaccgacgatcgttcacttggcacaaaggggagtagcac
tgtccaagctgttgtggtccgtcagggagattggccaacctgtggggtttcagatcgaca
taagtacgtcagtatttcagccatcgatcaatctggcggttcatagggctgtgcttgcaa
cctttctggcagaaaggagagagcaaagtgatttgctgtctcctgttgattgtggcctgt
tgaggcccagtaatggcagatgctagttcaaggactgacacatcgattgttgtagacaac
gacgacaaaaaccaccagttagaaaacggacatagtggtgcagtcatggcttctaactct
tcagatagatctgacagatctgacaaacttatggaccaaaagacaattcggcggcttgct
caaaatcgtgaggcagcaagaaaaagtcggctgaggaaaaaggcatatgtgcaacaacta
gagagcagtaagctgaagcttgcacagctagagcaggaacttcagaaagctcgtcagcag
ggaatcttcatctctagctctggagaccagacccatgccatgagtggaaatggggcattg
acttttgacttagaatacactagatggctcgaggagcaaaataagcagataaatgagttg
aggacagcagtgaatgctcatgcaagtgacagtgaccttcgtcttattgttgatggcata
atggcgcattatgacgaggtattcaaggttaagggtgtagctgcaaaggccgatgtgttt
catatactttcaggcatgtggaagacacccgcagaaagatgcttcctgtggcttggtggt
ttccgtccatctgagcttctaaagctcctagcaaatcacctcgaacctttaaccgagcag
cagttgctgggattaaacaacctccaggaatcttctcagcaggcggaggatgcactttca
caaggtatggaagcactgcagcaatctctggcagatactttggctggatctctcgnttca
tcagggtcttctgggaatgtggcgaactacatgggtcagatggcaatggccatgggtaaa
ctaggaacgctcgagaatttcctttgccaggcggacaacctgcgacagcagacattgcat
caaatgcaacgaattctgacgatccggcaagcctcgcgtgctcttcttgccatacacgat
tacttttcacgcttgcgtgctttgagttcgctgtggcttgctaggccacgggagtaacaa
aatggtcatgtgtgcctgtgacgaggttagacgctcattttgatggacngcagataattg
ggtttttccctgtacaattgtgtttggcagctgtggagctaaagttaaaaactgtaccta
aagtggtgtatgcaaataggtgaagcctctaagtaagttataacgattgcattattgtgt
tagcaataaaagttgggtaattcaggatgtgtcctgagttgttttgttgtagtagaagaa
ctgcatgtagtggctggaaatgcagtgttgaatgtaactaaagctctgctgctcacgttg
cataatgttgtgtagtaatagttagctagtgatgcccattttacctgcactcctctggga
agctgaaactgcaacctgaagcaaccacggtgcagaagaccgcatgcatggtaaatgatt
aaaaggatatatatgggctcaacatcgctgccaaatcctgagataatgaacaggcatgct
aaactgctacttccacatgaaacntcccagttgacatgaagaatgagctgttcagtttta
tggtttctgtgttgcactgtacataattcctgtacgggtctgaanttatcctgaaatcat
gctaaactgcagaagcatatgaaatctccagaccggntgacatgaaa
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