Barley1 GeneChip Exemplar: Barley1_00471
|
Name
| 
|
|---|
Date last modified
| 2004-12-04 |
|---|
Sequence Type
| Exemplar
|
|---|
Probe Sets
| Probe Sequences & Alignment
Probe sets from Barley1_00471:
1. Contig360_x_at: Expression Details Probe-Level Intensity
2. Contig471_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: Q40052, Glycine rich protein, RNA binding protein Length = 173, Expect:3e-15. match=38/38 aa. more
2. BEST BLASTX NR: S53050, "RNA binding protein - barley emb|CAA88558.1| glycine rich protein, RNA binding protein [Hordeum vulgare subsp."
, Expect:1e-100.
3. BEST BLASTX NR: 11/07/02 S53050 1e-15 RNA binding protein - barley emb|CAA88558.1| glycine rich protein, RNA binding protein [Hordeum vulgare subsp. more
4. BEST BLASTN TIGR Barley Gene Index: TC138719, homologue to UP|Q41518 (Q41518) Single-stranded nucleic acid binding protein, partial (81%) Length = 876, Expect: 532, match=299/299. 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: 532
>Barley1_00471
CCGGTTCGGGTTCCTGGTTCGGTTCGGGTTCGGTTCGGTTCGGGTCCGAGAGACAGTAGC
TAGCCTAGCCTAGGGTTTTCGTAGGAGGAGAAGGAGAGGAGGAGATCCATGGCGGAGACG
GAGTACCGCTGCTTCGTGGGCGGCCTCGCCTGGGCCACCGACGACCACAACCTCCAGGCC
GCCTTCAGCCAGTACGGCGAGATCCTCGACGCCAAGATCATCGCCCAGTTATCCATCCAT
CTATCGTCTACCGTCTTCGTCAGCAAGTTATCTATCTTCGGTGTGTCAGTCTGAGTCGTG
TTTGTGTGTCTGTCCGGTCCTGTGGTGTTTTTGATCGCGAGCTCGAGTGGTCTCTGTGTT
ACGCGAGGAAGAAACAACATGTCTTATCTTTCAGTCGGTCGGTCTGTCGTCGGTGATGCA
GCAATCCCTCTTCCTGTCTTGGACTGTAATTGGGATGTGATGTTGGTGATCCTATGTTTG
AACTCGGTTTGAATCGATGAAGAAAAATGCAAGTCAAAAAAAAAAAAAAAAA
|
|---|
ESTScan2.0 Prediction ( Arabidopsis model)
|
ESTScan2 CDS Prediction:
Barley1_00471 168 109 294 contig from HarvEST v. 1.03 assembly 25 [Hordeum vulgare]
ATGGCGGAGACGGAGTACCGCTGCTTCGTGGGCGGCCTCGCCTGGGCCACCGACGACCAC
AACCTCCAGGCCGCCTTCAGCCAGTACGGCGAGATCCTCGACGCCAAGATCATCGCCCAG
TTATCCATCCATCTATCGTCTACCGTCTTCGTCAGCAAGTTATCTATCTTCGGTGTGTCA
GTCTGA
Protein Prediction:
MAETEYRCFVGGLAWATDDHNLQAAFSQYGEILDAKIIAQLSIHLSSTVFVSKLSIFGVS
V
|
|---|