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Barley1 GeneChip Exemplar: Barley1_01539


Name

      

Date last modified
2004-12-04
Sequence Type
Exemplar
Probe Sets
Probe Sequences & Alignment

Probe sets from Barley1_01539:
1. Contig1539_s_at:  Expression Details  Probe-Level Intensity
 
Genomic Alignment with
Rice and Cereals		No Rice Alignment at Gramene
BLAST and EST alignment
Plant Sequence BLAST

1. PlantGDB  2. BarleyBase Blast 3. NCBI BLAST  4. GrainGenes BLAST on Mapped Wheat Ests etc 5. Gramene BLAST  6. EBI BLAST 7. TAIR BLAST  

Annotation 
1. BEST BLASTX UniProt: 143B_HORVU, (Q43470) 14-3-3-like protein B (14-3-3B) Length = 262, Expect:5e-11. match=31/31 aa. more

2. BEST BLASTX NR: Q43470, 14-3-3-LIKE PROTEIN B (14-3-3B) pir||T04406 14-3-3b protein - barley , Expect:1e-143.

3. BEST BLASTX NR: 11/06/02 Q43470 4e-11 14-3-3-LIKE PROTEIN B (14-3-3B) pir||T04406 14-3-3b protein - barley more

4. BEST BLASTN TIGR Barley Gene Index: TC132090, UP|143B_HORVU (Q43470) 14-3-3-like protein B (14-3-3B), complete Length = 1254, Expect: 328, match=311/311. It may represent same contig. more

5. BEST TBLASTX ATH1 GeneChip Exemplar:

Barley1 exemplars and BEST BLASTX NR results are kindly provided by Dr. Timothy Close from  HarvEST:Barley. BLASTX NR is based on contig assembly #31, and other BLASTs are based on contig assembly #25 from HarvEST:Barley.

     up to 5 BLAST top hits for all types of BLASTs.
Nucleotide Sequence
 
Total length: 328
>Barley1_01539
CCGTGATAACCTGACGCTGTGGACTTCCGACATCTCGGAGGACGCCGCTGAAGAAATGAA
GGATGCTCCCAAGGGTGAATCTGGAGATGGACAGTAAACATTGTCTATGTGTCCAGAAAC
TTGTCTTTCTTGCTTGTTCAGTGTAGATTGTAATGTCGTCAGTGTGGTTGTTGGTAATTG
GAGGCTCCAATTTGTGTTGTGATAGGGAAGCTTGTAGCTGCCTGCCTTGCTTTGTTATCG
GGCTGCACTGGTTATTGCCTCTTGTTGAACCTTCCTGTTACTTTGGTGGTTCTAGAAATT
TCTGCTGCTCTAAAAAAAAAAAAAAAAA
ESTScan2.0 Prediction ( Arabidopsis model)
 
ESTScan2 CDS Prediction:
Barley1_01539 132 1 97 contig from HarvEST v. 1.03 assembly 25 [Hordeum vulgare]; minus strand
XXCCGTGATAACCTGACGCTGTGGACTTCCGACATCTCGGAGGACGCCGCTGAAGAAATG
AAGGATGCTCCCAAGGGTGAATCTGGAGATGGACAGTAA

Protein Prediction:
RDNLTLWTSDISEDAAEEMKDAPKGESGDGQ

 

 
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