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Scarlet Runner Bean Genome Assembly Nancy Phang June 4, 2004.

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Presentation on theme: "Scarlet Runner Bean Genome Assembly Nancy Phang June 4, 2004."— Presentation transcript:

1 Scarlet Runner Bean Genome Assembly Nancy Phang June 4, 2004

2 Contig266405Contig266405 is 23.3 kb FGENESHBLASTnBLASTptBLASTnDescription Gene 1 6e-17 2.93e-38 P063968 Lotus japonicus mature nodule Lotus japonicus cDNA cloneGENLf031c12 3', mRNA sequence. Carica papaya mitochondrion, complete genome Gene 22e-1579e-397e-66 2369 Tepary bean root cDNA Phaseolus acutifolius cDNA clone LR0990,mRNA sequence. Os12g0525300 [Oryza sativa (japonica cultivar-group)] Cinnamodendron ekmanii small subunit ribosomal RNA gene, partialsequence; mitochondrial Gene 33e-09NS

3 GENSCANBLASTnBLASTptBLASTnDescription Gene 12e-08 4.9 3e-46 Carica papaya mitochondrion, complete genome Gene 2 0.0 1e-342e-76JGI_ACBU3381.fwd ACBU Phakopsora pachyrhizi infected soybeanleaf tissue 6-8 days post inoculation with TW72-1 urediniosporesGlycine max cDNA clone ACBU3381 5', mRNA sequence. hypothetical protein [Vitis vinifera] Medicago truncatula clone mth2-7h6, complete sequence

4 GENEMARKBLASTnBLASTptBLASTnDescription Gene 1n/a3e-32 Phaseolus vulgaris clone cosmid 9D10 tRNA-Tyr and tRNA-Asn genes,complete sequence; mitochondrial Gene 2n/a5.19e-65 Phaseolus vulgaris clone cosmid 9D10 tRNA-Tyr and tRNA-Asn genes,complete sequence; mitochondrial Gene 3n/a 0.96 2.9NS Gene 4n/a5e-092e-08 Vitis vinifera contig VV78X237318.5, whole genome shotgun sequence Gene 5n/a4.72e-21 Medicago truncatula clone mth2-7h6, complete sequence Gene 6n/a5e-265e-111 hypothetical protein ZeamMp158 [Zea mays subsp. mays] Soybean 18S ribosomal RNA gene Gene 7n/a4e-131e-34 unnamed protein product [Vitis vinifera] Medicago truncatula clone mth2-7h6, complete sequence Gene 8n/a2e-444e-53 hypothetical protein [Vitis vinifera] Lotus japonicus genomic DNA, chromosome 5, clone: LjT25M07, TM1837,complete sequence Gene 9n/a2.51e-36 Glycine max strain Williams 82 clone GM_WBb0027P13, completesequence Gene 10n/a6.86e-16 Bambusa oldhamii mitochondrion, complete genome Gene 11n/a1.14.8NS Gene 12n/a4.89.7NS

5 Genscan FGENESH GENEMARK SRB 23.3 kb Contig266405Contig266405 Repeat

6 Genscan FGENESH GENEMARK SRB 23.3 kb Contig266405 OverlapsContig266405 Repeat ß Overlap

7 Plant Repeats Database RepeatMasker Results There were 2 Small RNA gene repeats They were a total of 349 bp in length Covered 1.49% of sequence Repeat 1 is located from 14202- 14429 bp and 15067-15142. Repeat 2 is located from 15265- 15309 bp. There were 2 Small RNA gene repeats They were a total of 349 bp in length Covered 1.49% of sequence Repeat 1 is located from: 14112- 13550 bp. Repeat 2 is located from: 14663 – 14871 bp. Repeats 3 and 4 are located from: 14202- 14229bp and 14908-15142 and 13592-13922 bp.

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