Barley1 GeneChip Exemplar: Barley1_AF509747
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Name
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Date last modified
| 2004-12-04 |
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Sequence Type
| Exemplar
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Probe Sets
| Probe Sequences & Alignment
Probe sets from Barley1_AF509747:
1. AF509747.1_at: Expression Details Probe-Level Intensity
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Genomic Alignment with
Rice and Cereals | No Rice Alignment at Gramene |
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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 |
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| Annotation |
1. BEST BLASTX UniProt: Q8L3P8, Stem rust resistance protein Rpg1 (Barley stem rust resistance protein) Length = 837, Expect:0. match=837/837 aa. more
2. BEST BLASTX NR:
3. BEST BLASTX PLANTS: 10/14/03 1. gb|AAM81975.1 0 barley stem rust resistance protein [Hordeum vulgare subsp. vulgare] Length = 837; 2. gb|AAM81972.1 0 AF509748_1 barley stem rust resistance protein [Hordeum vulgare subsp. vulgare] Length = 837; 3. gb|AAM8 more
4. BEST BLASTN TIGR Barley Gene Index: TC141181, UP|Q8L3P8 (Q8L3P8) Stem rust resistance protein Rpg1 (Barley stem rust resistance protein), complete Length = 3283, Expect: 3302, match=3283/3283. It may represent same contig. more
5. BEST TBLASTX ATH1 GeneChip Exemplar: 252549_at, ; at|At3g45860; protein kinase - like receptor-like protein kinase RLK3, Arabidopsis thaliana, EMBL:ATH011674 Length = 2031, Expect= 3e-45, match=31/77 aa. more
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. |
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| Nucleotide Sequence |
Total length: 3302
>Barley1_AF509747
TTTTTGGGCGTGGATCTAAGCGCTTCTGTTTCTAAGAAAACAACGGTGATGTATTTTGCA
TCGCCTATTTTACATGATCTGTTGGAGTTGGTGATTTTTGAAGATGCTCTAAGAAAACAA
CCAGACAATTTAACGATGTCTTTTACTACGATCGGTCGTATTGGAGAGCCTGTTAGGTGC
AATACTTAATTCTAATCTGCAAGTCCGTTCGTGAAGAGCTAATCATAGTGTGGGGGGCGT
GGTTGGTGAGAGCTAATCATACTGGTCCTCCTTGCTGCGGATGGCAAGATATTTTCGTCC
TCAATAATTGACTAGTTGCAGCAGTACTCTGCCCACTTGAGCACCATTTTGATTTTTGGC
CGACTTGTATTTTGCCTTCCACGTACTTTCCCCTCTCTCTCCCGCAGTCCCGCGTGGACT
ATTGTTGTGGTTGGTTGATTGCCGGCCGCCATGATGCGAAGGATGGTGATGAAGGTGGCG
CTGGAGGACAGGAGCCAGCAGCGGAAGGCGCTCAAAGCAGTCTCCACTCTACATGGTATC
GACGCGATTGCCGCGGACTTGCGGTGCGGGACGATCACGGTCGTCGGCGTCGTCGACCCC
GTCGACGTCGTGGCCAAGCTGCGAAGGTTGTTTGCCAACGCTCAGATCGTCTCCGTCGGG
CCGGCCAAAGAGGAGAAGAAGGACGGCGACAAGAAGGACGGCGCCGACAAGAAGAAGCCC
GTACCGGTCCCGCCGGTGTACTATCCCTTTCCCTACTATCCGCCCCCTCGTCCTCGGTAC
GAGTTTACAGTCGGGTTCTTGAACAGCATCACAGACAATTTCTCCGAGGCGCGCATCATT
GTCCGTGGTCGGCATGGAATAGTCTACAAGGGAGTGCTGGACAATGGGCAGTACATTGCT
GTGAAGAAGCTTCACCTCATGCCGGGGCTGGACGATGAGGAATTCAAAAACGAGTTTAAT
AATCTTATGAGGGTCCGACATCAAAATATCATACCGTTGGTTGGTTACTGCCATCACACA
AAACAGGTGCTTGTTGAGCACAATGGAAAGCATGTTTCTGCTCGAGTAGAAGAAAGATAT
TTATGCTCCGAATACTTGGAGGGAGGAAGCCTTGACAAGCATCTTTCTAATGAACCATGC
GCACTTGCTTGGTACACATGTTACAAAATAATTAAAGGCATCTGTGATGGTTTACTTTGC
CTTCACAAGGGATTCCAAGAGCCTATTTGGCATTTAGAATTAAAACCTACAAAAATTTTG
CTGGATAAGGACATGATGCCCAAAATTGGAGGTTTTGGTTTCTCTAGACTCTTTGATTCA
ATAGAAACCTCCAGCACATCAGAAGTTAGGGGAACAAGTGTATATATGCCACCAGAATAC
ATCAGTAAACGGCTAATCACATCAAGTAATGTATTCAGTCTGGGTGTCATAATCTTGCAA
ATTATGGCAGGAAAGGAGAGCTATACCAAATGTGTAGACATTCCACCCGAAGAGTTTACT
GAGCGTGTATATGGATTCTGGGTAAATAGGATGCCGGGCACAGTATCGAAGCATACTTCC
AATGAAGTTAAAACATGCATCGAAATAGCTCTAAAATGCGTGGAGTCCAATCGAGTGAAC
AGGCCTACTATAAATGAGATCATACAAAGGATGGATAAGATTGATATTGTTGAGTGCTCA
TCTTTAGGTGATCTATATAAGACAAGGGAGTTTGCATTCGAGTTCTTAGAACATATTACA
AATGTTTTTTCTGAGAAGAACATAATTGGTCGTGGTGCATGTGGGGTTATTTACAAGGGA
GTGTTGGACAATGGAGAAGAAATTGCTGTTAAGAAACTTCATCAAACGTTGTCTATTGAT
GATGGGCTATTTAAGAAAGAGGTTAATAATGTAATGAGGGCCGAACATAAAAATATTGTA
CGGTTAGTTGGCTACTGCCACCATATATCACCAATAATTGTTGAGCACGAAGGAAAACAT
GTTTCTGCTAGTGTGATAGAAAGAGTGATTTGTTTCGAATACATGCAACGAGGAAGCCTT
GACGACCAACTTTCAGCTGAATCCTGCAAACTTGATTGGGACAGATGTTACAAAATAATA
AAAGGAATATGTGAGGGGTTACATTACCTTCATAATGCTGTCCCTCCCATTTACCATGGG
GACTTAAAACCCGGAAATATTTTGCTGGATAAGGATATGGTGGCAAAGATCGGTGATTTT
GGTTTGTCAAGAGTCTTTGATACAACGCAAACCTATATGACAACATCCGGAGTTATTAAA
GGAACACCTGGATACATGTCACCAGAATACATCAATGAACATAAGATCAGTCTGAAGTCT
GATGTATTTGCTCTCGGGGTCATAATCATAAAAATGATGACAGGAAAGGAGGACTACTCC
AACTATGCACACACCCCTCGGGAAGAATTTATTGAGCATGTATGTAAAAAATGGCAAGTG
AGGCTGCATGCAACAATGCGGTCCCATGTATTTGAAGAAGTGAGGACATGCATCGGAATA
GCATTAAAATGTGTGGAGGATGACCGAACTCAAAGGCCTACGATGGCTCAGATTTTGAAT
GAATTAAGTAACATTGGTATTGTTAAGAGATCACCAGTAGATCGGGTGCAGGAAACAATG
TCTACCCAAGTATCCGAAGAAGTGAGGACATGCATCGAAATAGTGTTAAAATGTGTGGAG
GATGACAGAACGCAAAGGCCTACAATAGCCCAGATTGTTAATGAACTAAGTAAGATTGGT
ATTGCTAAAGGTTCATCCATCAGCCAGATTTCCCAGGCTACTTCTTCCAGCCCAGAGCAG
ACGACACAAGGAGGAGGCCATCAGGTAAACAAGCTGACTGCAACGCCACTAGAAGAAAAG
TCGAGATCATGCCCTGGCCAAGCGTGCAAAGAACTGAAGCTAAAGAGGAAAGTAAAACTG
AAGTTGAAGAGGAACGTAAAATGAAGATGAAGGGCGCTGTCGAAAATGAAGCTATAAACC
CTGCGGGACAAGTCCAGAAGTGGTGACACCCCAGAAGCAGAGACAAATAAGGAGGGTCCC
GCAAGTCAGCCAGACCTCACGCCCCCTCCAGGGGATACCCTGCCAATGGCAATAACTGGG
TCATGTATCATGCCCTGGCCAAGCGTGCAGATCATTCTGGATTTGTGAGTGAGTACAGCT
AGTAGTGCTGAGTATTTGTGGTGTTCGTCTCATCGGGTAGTAGTAGTAGGATTGTAACAG
ACTGCGTTGAGGACATTTCATTATCGTGCCATATGTATCGCCCAAAAAAAAAAAAAAAAA
AA
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ESTScan2.0 Prediction ( Arabidopsis model)
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ESTScan2 CDS Prediction:
Barley1_AF509747 757 1 3182 (AF509747) stem rust resistance protein Rpg1 (Rpg1) mRNA, complete cds [Hordeum vulgare]
TTTTTGGGCGTGGATCTAAGCGCTTCTGTTTCTAAGAAAACAACGGTGATGTATTTTGCA
TCGCCTATTTTACATGATCTGTTGGAGTTGGTGATTTTTGAAGATGCTCTAAGAAAACAA
CCAGACAATTTAACGATGTCTTTTACTACGATCGGTCGTATTGGAGAGCCTGTTAXGGTG
CAATACTTAATTCTAATCTGCAAGTCCGTTCGTGAAGAGCTAATCATAGTGTGGGGGGCG
TGGTTGGTGAGAGCTAATCATACTGGTCCTCCTTGCTGCGGATGGCAAGATATTTTCGTC
CTCAATAATTGACTAGTTGCAGCAGTACTCTGCCCACTTGAGCACCATTTTGATTTTTGG
CCGACTTGTATTTTGCCTTCCACGTACTTTCCCCTCTCTCTCCCGCAGTCCCGCGTGGAC
TATTGTTGTGGTTGGTTGATTGCCGGCCGCCATGATGCGAAGGATGGTGATGAAGGTGGC
GCTGGAGGACAGGAGCCAGCAGCGGAAGGCgCTCAAAGCAGTCTCCACTCTACATGGTAT
CGACGCGATTGCCGCGGACTTGCGGTGCGGGACGATCACGGTCGTCGGCGTCGTCGACCC
CGTCGACGTCGTGGCCAAGCTGCGAAGGTTGTTTGCCAACGCTCAGATCGTCTCCGTCGG
GCCGGCCAAAGAGGAGAAGAAGGACGGCGACAAGAAGGACGGCGCCGACAAGAAGAAGCC
CGTACCGGTCCCGCCGGTGTACTATCCCTTTCCCTACTATCCGCCCCCTCGTCCTCGGTA
CGAGTTTACAGTCGGGTTCTTGAACAGCATCACAGACAATTTCTCCGAGGCGCGCATCAT
TGTCCGTGGTCGGCATGGAATAGTCTACAAGGGAGTGCTGGACAATGGGCAGTACATTGC
TGTGAAGAAGCTTCACCTCATGCCGGGGCTGGACGATGAGGAATTCAAAAACGAGTTTAA
TAATCTTATGAGGGTCCGACATCAAAATATCATACCGTTGGTTGGTTACTGCCATCACAC
AAAACAGGTGCTTGTTGAGCACAATGGAAAGCATGTTTCTGCTCGAGTAGAAGAAAGATA
TTTATGCTCCGAATACTTGGAGGGAGGAAGCCTTGACAAGCATCTTTCTAATGAACCATG
CGCACTTGCTTGGTACACATGTTACAAAATAATTAAAGGCATCTGTGATGGTTTACTTTG
CCTTCACAAGGGATTCCAAGAGCCTATTTGGCATTTAGAATTAAAACCTACAAAAATTTT
GCTGGATAAGGACATGATGCCCAAAATTGGAGGTTTTGGTTTCTCTAGACTCTTTGATTC
AATAGAAACCTCCAGCACATCAGAAGTTAGGGGAACAAGTGTATATATGCCACCAGAATA
CATCAGTAAACGGCTAATCACATCAAGTAATGTATTCAGTCTGGGTGTCATAATCTTGCA
AATTATGGCAGGAAAGGAGAGCTATACCAAATGTGTAGACATTCCACCCGAAGAGTTTAC
TGAGCGTGTATATGGATTCTGGGTAAATAGGATGCCGGGCACAGTATCGAAGCATACTTC
CAATGAAGTTAAAACATGCATCGAAATAGCTCTAAAATGCGTGGAGTCCAATCGAGTGAA
CAGGCCTACTATAAATGAGATCATACAAAGGATGGATAAGATTGATATTGTTGAGTGCTC
ATCTTTAGGTGATCTATATAAGACAAGGGAGTTTGCATTCGAGTTCTTAGAACATATTAC
AAATGTTTTTTCTGAGAAGAACATAATTGGTCGTGGTGCATGTGGGGTTATTTACAAGGG
AGTGTTGGACAATGGAGAAGAAATTGCTGTTAAGAAACTTCATCAAACGTTGTCTATTGA
TGATGGGCTATTTAAGAAAGAGGTTAATAATGTAATGAGGGCCGAACATAAAAATATTGT
ACGGTTAGTTGGCTACTGCCACCATATATCACCAATAATTGTTGAGCACGAAGGAAAACA
TGTTTCTGCTAGTGTGATAGAAAGAGTGATTTGTTTCGAATACATGCAACGAGGAAGCCT
TGACGACCAACTTTCAGCTGAATCCTGCAAACTTGATTGGGACAGATGTTACAAAATAAT
AAAAGGAATATGTGAGGGGTTACATTACCTTCATAATGCTGTCCCTCCCATTTACCATGG
GGACTTAAAACCCGGAAATATTTTGCTGGATAAGGATATGGTGGCAAAGATCGGTGATTT
TGGTTTGTCAAGAGTCTTTGATACAACGCAAACCTATATGACAACATCCGGAGTTATTAA
AGGAACACCTGGATACATGTCACCAGAATACATCAATGAACATAAGATCAGTCTGAAGTC
TGATGTATTTGCTCTCGGGGTCATAATCATAAAAATGATGACAGGAAAGGAGGACTACTC
CAACTATGCACACACCCCTCGGGAAGAATTTATTGAGCATGTATGTAAAAAATGGCAAGT
GAGGCTGCATGCAACAATGCGGTCCCATGTATTTGAAGAAGTGAGGACATGCATCGGAAT
AGCATTAAAATGTGTGGAGGATGACCGAACTCAAAGGCCTACGATGGCTCAGATTTTGAA
TGAATTAAGTAACATTGGTATTGTTAAGAGATCACCAGTAGATCGGGTGCAGGAAACAAT
GTCTACCCAAGTATCCGAAGAAGTGAGGACATGCATCGAAATAGTGTTAAAATGTGTGGA
GGATGACAGAACGCAAAGGCCTACAATAGCCCAGATTGTTAATGAACTAAGTAAGATTGG
TATTGCTAAAGGTTCATCCATCAGCCAGATTTCCCAGGCTACTTCTTCCAGCCCAGAGCA
GACGACACAAGGAGGAGGCCATCAGGTAAACAAGCTGACTGCAACGCCACTAGAAGAAAA
GTCGAGATCATGCCCTGGCCAAGCXGTGCAAAGAACTGAAGCTAAAGAGGAAAGTAAAAC
TGAAGTTGAAGAGGAACGTAAAATGAAGATGAAGGGCGCTGTCGAAAATGAAGCTATAAA
CCCTGCGGGACAAGTCCAGAAGTGGtGACACCCCAGAAGCAGAGACAAATAAGGAGGGTC
CCGCAAGTCAGCCAGACCTCACGCCCCCTCCAGGGGATXACCCTGCCAATGGCAATAACT
GGGTCATGTATCATGCCCTGGCCAAGCGTGCAGATCATTCTGGATTTGTGAGTGAGTACA
GCTAG
Protein Prediction:
FLGVDLSASVSKKTTVMYFASPILHDLLELVIFEDALRKQPDNLTMSFTTIGRIGEPVXV
QYLILICKSVREELIIVWGAWLVRANHTGPPCCGWQDIFVLNNXLVAAVLCPLEHHFDFW
PTCILPSTYFPLSLPQSRVDYCCGWLIAGRHDAKDGDEGGAGGQEPAAEGLKAVSTLHGI
DAIAADLRCGTITVVGVVDPVDVVAKLRRLFANAQIVSVGPAKEEKKDGDKKDGADKKKP
VPVPPVYYPFPYYPPPRPRYEFTVGFLNSITDNFSEARIIVRGRHGIVYKGVLDNGQYIA
VKKLHLMPGLDDEEFKNEFNNLMRVRHQNIIPLVGYCHHTKQVLVEHNGKHVSARVEERY
LCSEYLEGGSLDKHLSNEPCALAWYTCYKIIKGICDGLLCLHKGFQEPIWHLELKPTKIL
LDKDMMPKIGGFGFSRLFDSIETSSTSEVRGTSVYMPPEYISKRLITSSNVFSLGVIILQ
IMAGKESYTKCVDIPPEEFTERVYGFWVNRMPGTVSKHTSNEVKTCIEIALKCVESNRVN
RPTINEIIQRMDKIDIVECSSLGDLYKTREFAFEFLEHITNVFSEKNIIGRGACGVIYKG
VLDNGEEIAVKKLHQTLSIDDGLFKKEVNNVMRAEHKNIVRLVGYCHHISPIIVEHEGKH
VSASVIERVICFEYMQRGSLDDQLSAESCKLDWDRCYKIIKGICEGLHYLHNAVPPIYHG
DLKPGNILLDKDMVAKIGDFGLSRVFDTTQTYMTTSGVIKGTPGYMSPEYINEHKISLKS
DVFALGVIIIKMMTGKEDYSNYAHTPREEFIEHVCKKWQVRLHATMRSHVFEEVRTCIGI
ALKCVEDDRTQRPTMAQILNELSNIGIVKRSPVDRVQETMSTQVSEEVRTCIEIVLKCVE
DDRTQRPTIAQIVNELSKIGIAKGSSISQISQATSSSPEQTTQGGGHQVNKLTATPLEEK
SRSCPGQAVQRTEAKEESKTEVEEERKMKMKGAVENEAINPAGQVQKWDTPEAETNKEGP
ASQPDLTPPPGDXPANGNNWVMYHALAKRADHSGFVSEYS
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