Contig Sequence

Contig name: BC000034353 (Nimblegen Contig name: CONTIG61533)

Contains SNP BS00094271 at position 661 (ambiguity code highlighted in red in the sequence below).

TACTTCTTGACGAACGGAGGGACAGAAGTCTACGCCGACGTGAGGAGGAACTCGTTGGAGGAGGCGGTCAAGCTGTGCCTCGCCACTGGCATGCAAGGGATCGTGTCCGAGGCCCGCGCGGTCTTCAGGTTCCCGACTGCCATACCGAAGATCAAGGAGGCTGACCTCTCCCTACTAACTTACGGGACACTCAATAACGTGCCGGAGGCGGTGTACATGCAGCACCTGATGGGGGTGAACGGGGTCATCGTCGACCTCGTGCCGGAGATCACGGGGGCCGTCTCGGACCTCATCGCTGTCCCGGAGATCGACACGGAGATCAATGATCTGAGCAGCCAAGCTGTGAAAGATGCCGCGTCGACGCCAAATTTCACGCAGCGGGAGATTTCATTCCTACTGAGGCTGATGCCGGAGCTTGTGCAATAACACAGACTGCACCCCATTGATGGCTTTGGATGTAACTGACTGATTGGCATACAGGAAGAGGAGCCCCTTGTGGAGGGCAGTACAAGTATACGTACTGGGTTGGTGTGATCTCCTTCGGTGAGCCCTGGTCCTAGGAGAATTGGGGATTGTTTTATACATGTTGTAGCGAGGGGGCATTGATTTATACATGTTGTAGCGAGGGTGGTGATTTTTCTGGATATACAGTGAATGTCA[Y]CGTCACAATGGCGGTGTTATTACTACGCTAGTACTCCCTCATATTGGATGTAGGTCATCTCCAACACCCTTCCCATTAAATCCCCCTTTCCGGTCCCATTTTCTTTCATTCCGTCCCTTATCATCCGC

Note: The ambiguity code Y, highlighted in red, translates to C or T).

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 14 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 Map Location SxO cM
BS00094273 81
BS00094260 147
BS00094261 295
BS00094262 308
BS00094263 319
BS00094264 331
BS00094265 366
BS00094266 433
BS00094267 442
BS00094268 504
BS00094269 568
BS00094270 618
BS00094271 661 3B 1.25
BS00094272 667



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.