CerealsDB

Contig Sequence

Contig name: BC000000253 (Nimblegen Contig name: CONTIG69978)

Contains SNP BS00004009 at position 232 (ambiguity code highlighted in red in the sequence below).

GCCGTAGCAAATTAGTTCAACACCAACCAGCTAGCCATGGGTATGTGTTCCAACAAGAAGCGCAGCAGCCCTGGCGTTGCTGTGTGGTGTGTAGTCCTGGGCATAGCCCTGCTCGTCGTCGACGCGGCGGGCAGTGAAGGTCGTGCGAGAGCCGGGGACTTGGCTGAAGAGCATGGGGATGCAGCCTACTGCTCCGCCTTGTGCAAAGGCCGGTCGCAGTCGGACTTCGGA[S]CGTGCTACAATGAGTGCTTGTACGGGAGGGTGACAGGACAAGAAGAAGCAAGAGGAGGTGGTGGAGTTGGAGGGCCAGCTGGTCTCCTGGAGATGCCGACGAAACGCGTTGGACGGGAGGAAGAAGAGAAGACAAAGCAAGGGGACGCCACCGTCCGTTTGAGCGACCCAGTCTGGTGCTACGACGCTTGCCGCGAACATCCAGAATTGAACTACAACCAATGCGTCAATGATTGCTACGCTGAGAATATGCCGGACGCCGCATGGCTGGCGGCCCTTGGAGGAACCGGAGGAGAAGAAGCAAGAGGAGGAGTGGTTGATGTCCCAATGGTGGTGGTGCAGCATGAGGCTGCTGCAGGTGCACTGTCACGGGGCAACTGCGATGAGTATTGCCGCAAACACTATGATGAAGGCTCCCCCGGGTATAGGCACTGCCAGTATATGTGCCCACATCTGAGGGTCCACGGGGTAGCAGAAGGAGAAGAAGCAAGAGGAGGAGCTGTTGATGGGCCGACGGTGGTGGGGAGACCCCACTGCGACTGGTTCCGCGACTGTAGTGTAACGCCATGCGTCTGGCGATGTGGGAAGAGGGTGCAAGAGAAGGACAATGAAGGAACAAGAACAGGAGCGCTCAATGTCCTGGCGGCTGCGCGGCATGAGGTTGCTGTAGGAGCATGTTCGTCGACTGTGTACGTGCAATCATGCTATGCCTGTTGCCAAAGGGAGGTTACTAGAGATCCGGATTTCGACTGGTATGCTTGCATTCGCAGTTGCGATGACAAAGATGCTCTCCCAATCAAGAAGGAGCGAGAGAACAAGAAGTACGGCGTAGTCCCGCCGGCGAAGTAGTCGTTCGTA

Note: The ambiguity code S, highlighted in red, translates to G or C).

The highlighted SNP has not been mapped. Any other SNPs on the same contig are reported in the table below.

All SNPs on contig

There are 20 putative SNPs on this contig. If mapping information obtained from varietal crosses is available, it is shown in the table. When the SNP has NOT been mapped in a particular cross, the corresponding fields in the table are left blank.

SNPs id	Position	Map Location AxC	cM	Map Location SxR	cM	Map Location SxO	cM
BS00003907	52
BS00003812	82	6B	0.63
BS00004666	159
BS00022877	159
BS00007095	196
BS00007096	210
BS00007097	228
BS00007098	231
BS00004009	232			6B	10.95
BS00007099	243
BS00005064	499
BS00003659	503	6B	0.63
BS00007100	652
BS00007101	687
BS00006599	718
BS00007102	795
BS00007103	810
BS00000437	1008
BS00000436	1054
BS00007094	1057

BLAST information

To BLAST the above sequence against our SNP database click on the 'Query' button below. You may select an e-value cut-off for this search.

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Alternatively, if you wish to perform a BLASTN search with this sequence, please use the drop-down fields below to select the parameters (database and e-value cutoff value) you wish to use and then click the grey 'BLAST' button. At present your search can only be performed against Brachypodium distachyon, rice ( Oryza sativa ) or rye ( Secale cereale ) libraries. However, this site is actively being worked on and we hope to be able to add additional libraries.

Based at the University of Bristol with support from BBSRC.

Maintained by Mark Winfield.