CerealsDB

Contig Sequence

Contig name: BC000021368 (Nimblegen Contig name: CONTIG88958)

Contains SNP BS00050709 at position 558 (ambiguity code highlighted in red in the sequence below).

TTGGCAGCTTGCTTGACAAAATCAGCACCCTTTCCAATCTAGAGCATCTGGTCTTGTCTGAGAATGAAGAGCTTTCAAGTATACCAGAAAGTATTAGCAACCTCAGGAAGCTTCATACACTGGACCTCTCAAGCTGCCACCTAAAGAAGCTCCCCGATAGTATAAATCAGATGGTTAGTCTGAAGGTTCTAAATTTGAAAGGTGTTAACTGGTATGAATTGTCTCTCTCTCGGTTTAACTGTGCCTCTTTGCCATACTTTGAGGTGCATGCTTCAGGTGATAAATGTGGCAGCAATATCGTTCTGCTTGAGCCTACAAATCCTGATGTGTTGATGATAGATAGACTTGAAAATGTGAAGTCTGCAGGAGAGGCACACAGTATAAAACTAATAGAGAAACAAAAAATTATAAATCTAAAATTTGAATGGACTGTAGATGCTGCGAGGTCTGTGGATGACAAGGAGGTGTTGGAAAAACTAGTGCCGCCAAGCAGTGTACATACATTGGATATAACTGGTTACAGCAGTGTCTGCATTCCAGATTGGCTTATGGGTATC[R]GGCAATATCTCCCTAATGTTTCTTACTTATATTTGTGTGATTTTCAGAAGTGCAACAAGCTACCACCACTTGGTCTACTACCAAACTTACGAGACCTGAGTCTCACCCGTATGGAGGGCTTGGAAAAATGGAACACGACACATTACAGTGGCGAGGAAGGTTCAAATGAGCTCTTGTTCCCTAAGCTTGAGGAGTTGAGGATAGAGCAATGTGGCAAGCTGAGGATAAAACCGTGTCTGCCTGGGGAGAGCGCCAAGTATTTGTGCATACGAGGTTGTGATACTATGCTATCATCATGGGGAGAGCGCTCGTCACACTGCAGTACTTCCTCCTCTTCTCCGTTAACTGAGCTGGAAGTTGCTGAAAGCAAGGTGCCCATGCATCAGTGGAGGTTGCTTCACCACCTCCCTGCCCTTCGTAAATTAACTATCACTGATTGCAGTGATCTGACCACCTCACCTGAGATCATCCACAGCCTCTCTTCCCTTAGAGCGTTGTGCTTTGTATTATTGTCGCAGGCAGGACTGCCGAGAGGGTTGGTTGAACTGACATCTCTGCAGGAACTAACTCTGTATCGGTGTGCAACCATATCAGTACCAGAGTGGTTAGGGGAATTAACCTCTCTCAAGCGTTTTGTGATAGGGCGCTGCCAGGGGATGAGGTCTTTGCCTGACAGCATACAAGCGACGAAGCTTGAATATTTACAAATTGACGACGAATGCCCTACATTGGTGAAGTGGTGTAAATCAGAGAATAACAAGATGAAGCTCGCTCACATNNNNNNNGTGAACTTCCTATTCGACTCAGATGAAGAAGACGAGTCAAATGAAGAAGACATAGCAGATGACTCAGATGAAGAAGAGATAGCGGAGACCGTTGAGGAGACAACCACAATTGATGTGGCCAACGCAAGAGGTGCCGTCCACAATTCAGTAGCTGTCATTCATGGCACTGTGACTGATGAGGTGCGCCAACGGTTCAGGATGTGCTGTTGTACAGTGCTGTGATGAACATGCCTGGCTTCTTGTCTCATGGACAAGAATGGCTCTGCATATTGTCTAATCCTGTAGTCTCAGGTGGTGATCATGTCATAGTGATACTTCTAATCTATGATTTGTTTCTTGTCTACTCACGTGTTGACTCGTAGCCGTTTGCCATTTCCCTAATTAATGTTTGTTCTGGTGCGTGGATTATTAATATGATGCTCTGTTTGTG

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 22 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
BS00050699	120
BS00050703	155
BS00050705	162
BS00050707	524
BS00050708	557
BS00050709	558
BS00050710	648
BS00050711	666
BS00050712	711
BS00050713	812
BS00050714	827
BS00050715	860
BS00050716	986
BS00050695	1076
BS00050696	1081
BS00050697	1087
BS00050698	1091
BS00050700	1229
BS00050701	1243
BS00050702	1247
BS00050704	1568
BS00050706	1639

This contig has been mapped provisionally to chromosome 5BS.

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.

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.