Contig Sequence
Contig name: BC000005258 (Nimblegen Contig name: CONTIG31254)
Contains SNP BS00012936 at position 1735 (ambiguity code highlighted in red in the sequence below).
GAGAGATTTCTGAAGAAAGAAGATGATTATGAGCACGCTCTCACTCAGATTGGCGATCTCAAGATGTCCCTAAATAGTACCAAAGAGAATTATGAGGTAATGATAGAGGAGGCACACTATGACATCACTTGTTTAAGGAATACAGTCGGAAAATTGGAGGCTGAGGTGAGCAAGTATAGAGAAGAATGCGAAGCTAAGGAGCTTGAGATTGTCAGTTTAAACAAGCAGTCGGAGGAAGAAATTGCCACTCTTAAAGCAGAAGCTGACAGGGTAGGAGCATCATTGCGAGATGCAGAGCACGAACTACAAACTGTCAATGAGGAGAAAGAGATACTTCAAGAGAAGCTATTGCACACGGAATCAGCAGTTGTTGAAGCTAACAGGGCTGTGCAGGAGGTCAAAGCTGAGAAAGAGGGTCTTCAGGAGCAGCTAATGCGCACGGAATTAGCGGTTTCTGAAGCTAACAAGGCTATTGAGGAGGTAAAGGCTGAGAAGGAGGATCTTCAAGAGCAGCTAATGCACACGGAATCAGCGGTCGCTGAAGCCAGCAAGGCTTTACAGGAAGTAAAGGCTGAGAAGGAGGATCTTCAAGAGCAGCTAATGCACACGGAATCAGCGGTTACTGAAGCTAACAAGGCCTTGCAGGAGGTAAAGGCTGAGAAGGAGGATCTTCAAGAGCAGCTAATGCACACAGAATCAGGGGTTGCTGAAGCTAACAATGCTGTTCAGGAGGTGAAGGCTGAGAAACAGGGCCTTCAAGAGCAGCTAACGCACATGGAATCAGCAGTTGCTGAAGCTAACAAGGCTGCACAGGAGGCAACGTCTGAGAGTTTGCAACTGAAGGATAGGTTACTTGATAAAGAGAACGCATTGCAGAGCTTAACCCAGGAGAACGACGAATTCAGGCTGCGAGAGGCTGACGCCATGAAGAAGATAGAGGAATTATCTGCTCTCCTTGCTGAAGCCATGGAAAAGAAGCATCCTGAGGAGGAAGAGAAGCTAGTTGTTGTGGATGAGGTGCACAGTTCAGCGCGTGAAGTTGCTGAGACAGCTGCAGAAACTGAAGACACAGAAGGAGAGAGTGACAAAAAACCGAGCATGGAGCTCGTCGTCGCAAATGGAAACTCCAATGGCGACATGAACCAAGAGGAAGAGAAACACGACAGCAAGGTTGAGCAGCAGGAAGCCAAAAGTGATTTCACCACGGTACACGAGAGTGACAAAGTTGTCGAGAAGCAGCTGCAGGCAGATGTGAAACAGGAAACCGAATCGTCGAAAGACGACCTGTCCTCCAAGGAGGACAGCAGCACCGAACACGCAAATGCAAACGGAACAGCAGCATCAGCAGAGGTAACCAGCAAAGTCGCAATGTCCCCAACAACAACAAAACCGCAGAAGAAGAACAAACCCCTGCTGAAGAAGTTTGGTAACCTACTGAAAAAGAAGAACAGCAAGTAGTAGCAGGTGAACAGAAGAAAAACACATGTACTATTACTGGTGTTTATTATTACCCTGATCTTTCTTTTTCTTCTTCTTGTTTGATGACAGCAAGGTAGTGTGCTTAATTTCCACGTGTAATTTTTATACTGTCGACGCCTGTACTTTTGTGGTGATTGCAGTAGCTTTGTGGGTGNNNNNNNNNNNNNNNNNNNNNNNNATAAGCTGGACCTCCTGTTCTTTGCCCTATGGCTGTGGTTATTATTATCTACACGATCTGTGGCCGTTTGTTTGTAG[W]CCCTCCTGATTAAATACTGTGTAGCCCCTTATGGCAAGCTGATGTCACTCATATCATGCACCTGTACTACTATAATGTAATGTGATGTGATGTTGTTACCAGTGGGTGATAAACCCTAATACTATAACTAACCATCATGCTTGTTGGCATGATCTGTTGTTGGCTATTCT
Note: The ambiguity code W, highlighted in red, translates to A 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 |
| BS00017652 |
369 |
|
|
|
|
|
|
| BS00013109 |
390 |
|
|
|
|
|
|
| BS00014881 |
439 |
|
|
|
|
|
|
| BS00017817 |
440 |
|
|
|
|
|
|
| BS00016529 |
1046 |
|
|
|
|
|
|
| BS00016744 |
1100 |
|
|
|
|
|
|
| BS00014861 |
1319 |
|
|
|
|
|
|
| BS00008649 |
1548 |
|
|
|
|
|
|
| BS00008650 |
1549 |
|
|
|
|
|
|
| BS00008651 |
1572 |
|
|
|
|
|
|
| BS00008652 |
1574 |
|
|
|
|
|
|
| BS00008653 |
1576 |
|
|
|
|
|
|
| BS00008654 |
1578 |
|
|
|
|
|
|
| BS00012936 |
1735 |
|
|
1D |
73.73 |
|
|
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.
Maintained by Mark Winfield.