Contig Sequence

Contig name: BC000034601 (Nimblegen Contig name: CONTIG65253)

Contains SNP BS00095109 at position 225 (ambiguity code highlighted in red in the sequence below).

GAAGCAAAACCATCTCCCATGTATATATATTGTGGAAAAAGATGGCTCAAACAGAATGTTACTGCTCTCAAACAAACATACCTGTCATACACATACAATATATAACAGTAACGAGCATACAAGCCGTCATCAGTAAGAGGCGACCTTTGAGAACACAAGGATTGTTCTTTTCATATCTGGAATACGTTTGTCTGGAACCTCTCGTCGTATAACTGCCAGTGCCC[R]TACCTCTCCATGTGGAAGGCCGACCTCGGTATGTAAAAGTTGGGCTTAACCAGCGTCTCCAGGTTCTTCAGGTTAGCAGCAGCCTGCTCTATCCCCCTGCTCGTCAAATTCGCACAGCCAAACAGGTCCAGGACCTCCAGCTCCTTGCATCCTTCTGCGATCGAGTTGAGGCCGACGCCAGATAGCTTTGCAAACCTGAGCACGAGTTGTTTAAGCTTCGGCATGGACCTCGAGATCGCTATTGCTTCCCTGTCGCCGTCCTGGGGGCATGCTCTTAGATACTCTGCTGGAACTGTTCGAGCATGCTCTGATGAATCAAGCCAGTTGAATATGCTCCTCTTAAGGACCACGAGGTTAGGGCAGCTCTGCCCAATCACCT

Note: The ambiguity code R, highlighted in red, translates to A or G).

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 15 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, the corresponding fields in the table are left blank and, if available, a putaive location for the contig, based on our extensive NGS of various wheat lines, is given below the table.

SNPs id Position Map Location AxC cM Map Location SxR cM
BS00095103 146
BS00095104 157
BS00095105 161
BS00095106 186
BS00095107 210
BS00095108 222
BS00095109 225
BS00095110 273
BS00095111 284
BS00095112 339
BS00095113 375
BS00095114 417
BS00095115 438
BS00095116 466
BS00095117 480

This contig has been mapped provisionally to chromosome 1BS.




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.

e-value cutoff 


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.

BLAST input parameters Database: 


e-value cutoff: 








Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

Maintained by Mark Winfield.