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Wheat GeneChip Exemplar: Ta.10069.1.S1_at


Name

      

Date last modified
2004-12-12
Sequence Type
Consensus sequence from Ta.10069.1
Probe Sets
Probe Sequences & Alignment

Probe sets from Ta.10069.1.S1_at:
1. Ta.10069.1.S1_at:  Expression Details  Probe-Level Intensity
 
Rice Genome AlignmentGenome 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.
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  

Annotation 
1. BEST BLASTX UniProt: ASPR_HORVU, (P42210) Phytepsin precursor (EC 3.4.23.40) (Aspartic proteinase) Length = 508, Expect:0. match=311/412 aa. more

2. BEST BLASTN TIGR Wheat Gene Index: TC220292, similar to UP|ASPR_HORVU (P42210) Phytepsin precursor (Aspartic proteinase) , partial (88%) Length = 2293, Expect: 0, match=1736/1741. It may represent same contig. more

3. BEST TBLASTX Barley1 GeneChip Exemplar: Barley1_03144, Contig3144 (98 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 1717, Expect= 0, match=321/409 aa.

4. BEST TBLASTX ATH1 GeneChip Exemplar: 264344_at, ; |At1g11910; putative aspartic proteinase similar to GB:AAC49730;supported by full-length cDNA: Ceres:8972. Length = 1521, Expect= 0, match=192/276 aa. more
 
 
BLAST Details

TBLASTX vs Barley1 Exemplars

#

Species

Subject Sequence Description

Expect

Identity/Match

Identity%

HSP
Details

1

barley

Barley1_03144: Contig3144 (98 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 1717

0

321/409

78

View

2

barley

Barley1_04467: Contig4467 (41 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 2036

0

250/410

60

View

3

barley

Barley1_03526: Contig3526 (56 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 2049

0

168/273

61

View

4

barley

Barley1_02354: Contig2354 (2 members) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 416

6e-33

59/92

64

View

5

barley

Barley1_38563: Contig38563 (1 member:HU12E11u) from HarvEST Triticeae v. 1.03 assembly 25 [Hordeum vulgare] Length = 598

7e-31

51/75

68

View
Nucleotide Sequence
 
Total length: 1753

>Ta.10069.1.S1_at gb|BJ233195;
gtggtctgctcctcttccggtctcacttcatcggtattctctctctctctgtaatttgca
gctncgcggcgcaaccatgggaactggccgcctcgtgttccacctcctcctcctctccaa
cgtgctcctccatgccctcctcgccacgcccgcggagggccttgtccgcatcgcgctgaa
gaagcgaccagtcgacgagaacggcgtcgtcctcgtcgctggccgnctcaccggagatga
cgccgaggcaaagggccacgtcgtggcactgaagaactaccacaacgctcagtaccacgg
cgagatcggcatcggaacgccgccgcagaancttcaccgtcatcttcgacacaggcagct
ccaacctctgggtgccctcctccaagtgcttcctctcgattgcatgctacttccatgcga
gctacaaggccaagcggtccagcacgtacaagaagaatggaaaaatagttgcaattcagt
atggaactggtgcaatttctggctatgttagccaggacaatgtgcaagttggtgatgtan
ttgtgaaaaatcaggattttattgaagctaccagggaaccaagtattacttttatggttg
caaaatttgatggcatttttggtcttgggtttaaagaaatctcgaaaggtgatgttgtac
ctgtctggtataacatggttagccaaggcctagttagtagccctattttctcattgtggt
tgaacagacatgccggtgaagggcaagggggagaaattgtgtttggaggaattgatccta
atcatcataacggagatcatacatatgtccctgttactaggaagggatactggcagtttg
atatgggtgatgtcttgattggaggaaattccacaggattatgtgcgtctcgctgtgcag
ctatagcagattctggaacttcattgctttctggtcccacggcgataattactcaaataa
atgaaaagatcggtgcacctggggtagtcagccaagagtgcaaggccgttgtttctcagt
atgggcaacggatcctanatctgctgttaaaggagatggatccatcaaaaatatgctctt
tagtcggtctatgtactccagatggaacacaaggtgtaagggctggtagtcgaagtgtgc
tagatcatgaaggtgggagatcaaatgatgtcatgtgccatgcttgtgagatggctgttg
tatggatgacgaaccaacttgcaaagaatcaaactcaggatcttatttttaagtacatta
atcagctatgtgaccgtattcctagccctatgggagaatcatctgtggactgcggcagac
ttgcatccatgcctgacatcgctttctccatcgggggcaaacagtttgtgctgacaccag
agcaatatatcctgaagatcggtgagggggatgctacccagtgcatcagcggattcacgg
ccatggacattcctcgtccccgtggccctctctggatcctgggcgatatattcatgggag
cctaccataccgtcttcgactatggcaacatgaagattgggttcgcgaaggcggcatagg
gttcccccgtggtgggcggatgagccgcagagctgtctaatcttcaggtcggtttggtct
tgggcatgcaaagcatgtgtgtgcatatgttacatgcttaataatgctcgtatgatccga
gataataataaacctgtctgttatgatttgtccaatataatgaggcaggctttcatactc
annannnannggc

 

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