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Soybean GeneChip Exemplar: Gma.1002.2.S1_at


Name

      

The Soybean Genome Array is a mixed platform contains probe sets for ~37,500 soybean (Glycine max) transcripts, ~ 15,800 Phytophthora sojae transcripts and ~7,500 Heterodera glycines (cyst nematode) transcripts. This page shows annotations for soybean exemplars with prefix"Gma".

Date last modified
2004-11-29
Sequence Type
Consensus sequence from Gma.1002.2
Probe Sets
Probe Sequences & Alignment

Probe sets from Gma.1002.2.S1_at:
1. Gma.1002.2.S1_at:  Expression Details  Probe-Level Intensity
 
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: Q9ZWS2, Flavonoid 3-O-galactosyl transferase Length = 455, Expect:3e-61. match=113/165 aa. more

2. BEST BLASTN TIGR Soybean Gene Index: TC208101, weakly similar to UP|Q9ZWS2 (Q9ZWS2) Flavonoid 3-O-galactosyl transferase, partial (46%) Length = 1022, Expect: 0, match=486/489. It may represent same contig. more

3. BEST TBLASTX Barley1 GeneChip Exemplar: Barley1_18184, Contig1818. (4 members) from HarvEST Triticeae v.1.03 assembly 25 [Hordeum vulgare. (1452 letters), Expect= 2e-34, match=36/66 aa. more

4. BEST TBLASTX ATH1 GeneChip Exemplar: 246468_at, ; at|At5g17050; UDP glucose:flavonoid3-o-glucosyltransferase -like protein UDP glucose:flavonoid3-o-glucosyltransferase, Vitis vinifera, EMBL:AF00037. (1383 letters), Expect= 4e-48, match=76/130 aa.
 
 
BLAST Details

BLASTX vs ATH1 Exemplars

#

Species

Subject Sequence Description

Expect

Identity/Match

Identity%

HSP
Details

1

arabidopsis

246468_at:at|At5g17050; UDP glucose:flavonoid3-o-glucosyltransferase -like protein UDP glucose:flavonoid3-o-glucosyltransferase, Vitis vinifera, EMBL:AF00037. (1383 letters)

4e-48

76/130

58

View

2

arabidopsis

246419_at:at|At5g17030; UDP glucose:flavonoid3-o-glucosyltransferase -like protein UDP glucose:flavonoid3-o-glucosyltransferase, Vitis vinifera, EMBL:AF000372;supported byfull-length cDNA: Ceres:4234. (1380 letters)

7e-44

67/118

56

View

3

arabidopsis

261804_at:at|At1g30530; UDP glucose:flavonoid3-o-glucosyltransferase, putative similar to UDP glucose:flavonoid3-o-glucosyltransferase GB:AAB81683 GI:2564114 from [Vitisvinifera];supported by full-length cDNA: Ceres:38407. (1362 letters)

6e-43

67/118

56

View

4

arabidopsis

246467_at:at|At5g17040; UDP glucose:flavonoid3-o-glucosyltransferase -like protein UDP glucose:flavonoid3-o-glucosyltransferase, Vitis vinifera, EMBL:AF00037. (1419 letters)

5e-42

65/118

55

View

5

arabidopsis

264873_at:at|At1g24100; putative indole-3-acetatebeta-glucosyltransferase similar to GB:AAB64022; supported by cDNA:gi_14423541_gb_AF387008.1_AF38700. (1383 letters)

6e-31

57/118

48

View
Nucleotide Sequence
 
Total length: 489

>Gma.1002.2.S1_at gb|AW471508; /DB_XREF=si12a12.y1 /CLONE=GENOME SYSTEMS CLONE ID: Gm-c1029-983
ctaaggtagtagttatgaatttctttgaggaattggaaccacctttgtttgttcaagaca
tgagaaacaagttgcagtctttgctttatgttgttccacttccttccacgttgttgccac
catctgacacagattcaagtggttgcttgtcatggttgggtatgaagaactctaaatcgg
tggcttatgtttgctttgggactgtggnggcaccacctccacatgagcttgtggcagtgg
cagaggcattggaagaaagtggctttccttttctgtggtctctgaaggaaggtctaatga
gtcttttgccaaatgggtttgttgagaggaccaagaagcgtgggaaaatagtgtcttggg
ctccacaaacccatgttttggctcatgattctgtaggagtttttgtgactcactgtggag
ctaactctgtgattgagagtgtttccagtggtgtgactatgatctgcaggccattctttg
gagatcaag

 

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