Contig Sequence
Contig name: BC000003862 (Nimblegen Contig name: CONTIG88766)
Contains SNP BS00012313 at position 909 (ambiguity code highlighted in red in the sequence below).
CGCCGCACCCGCACCGGAGCGTCGGTCCGTCGAACACCTAGCAGGCAGCCATGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCATGTCGGCCATCCGCAGCTCGCTCATCGACCCGGACGGCGGCGCGCTCGTCGACCTCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCGACGTGGAGTGGGCGCACGTGCTCGCCGAGGGCTGGGCGTCGCCGCTGCGCGGGTTCATGCGGGAGCACGAGTACCTCCAGTGCCTCCACTTCAACTCCCTCCGCCTCCCCTCCGGCGGCCTCGCCAACATGTCGCTCCCCATCGTGCTCGCCGTCGACGACGCCGCCAAGGACCGCGTCGGCGCCGCCCCCGACGTCGCGCTCGCCGGGCCCGACGGCGAGCTCCTCGCCGTCCTCCGCAGTGTCGAAATATACCCTCACAATAAAGAAGAAAGGATTGCAAGAACATGGGGGACAACTGCGCCTGGCTTACCTTATGTCGATGAGGCGATAACACCAGCTGGAAACTGGCTGATTGGTGGTGATCTGGAGGTGTTGCAACCCATTAAGTATAACGATGGCCTTGACCATTACAGGCTTTCACCCCAGCAACTTAGGGACGAATTCGACAAGCGTGGGGCTGATGCTGTATTTGCATTCCAGTTGAGAAACCCAGTCCACAATGGGCATGCACTGTTGATGAATGACACTAGAAGGCGTCTCTTGGAAATGGG[K]TTCAAGAATCCCATTCTACTGCTACACCCCTTGGGTGGTTTTACAAAAGCTGATGATGTCCCGCTGCCTGTTAGAATGGAACAACACAGCAAGGTCTTAGAAGATGGAGTCCTTGACCCCGAGACCACTATCGTGTCTATATTTCCCTCCCCAATGCATTATGCTGGTCCAGCAGAAGTGCAGTGGCATGCAAAGGCACGAATTAACGCCGGTGCTAATTTCTACATAGTGGGTCGTGATCCAGCTGGGATGGGCCATCCGACAGAGAAGAGAGATCTGTACAACCCAGACCATGGGAAGAAGGTCCTAAGCATGGCCCCCGGTCTGGAGAAACTCAACATATTGCCCTTCAAGGTAGCAGCATATGATACGGTGGCCAAGAAGATGGCTTTCTTTGAACCTTCACGCAGTCAAGATTTTCTGTTCATCTCAGGAACCAAGATGCGCACTTTCGCCAAAACTGGAGAGAACCCTCCTGATGGTTTCATGTGCCCTGGTGGGTGGAAGGTTCTTGTTGACTACTACAATAGCTTGCAAACTGAAGGAGCTACCGCCCCCGCCGCTGCTACTGTATGAGACAAGCTGCTGCATGGCTTTGAGATCATTTGTTCGCCGGCCAGAAATGGTGAATGCAGGGGATTTTAAAACCGTTCCTTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTAGGTTGCTAGTTTATTGATGCCATCAGATCCTCCAATTGTTCAAATTTTTTCTTTCAAAATAGAAAGAAAGATTTTGAAGCTTGGCACTGGAACTCAAAACTGTTAACAGATTGAGCGGTCGCAAATTCTGTTATTATCCTGTGATGACTCTGACAGTCCAACTAGCCAATAAAGAAGTTCATTGCAACTGTGGGAGCTCATCCAAGATCAGACTGCAATTAATATCCATATTATGACACAACGGAGTGGCAGAGTTGGCATTAC
Note: The ambiguity code K, highlighted in red, translates to G 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 6 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 |
BS00006433 |
866 |
|
|
|
|
|
|
BS00018514 |
868 |
|
|
|
|
|
|
BS00012313 |
909 |
|
|
2A |
16.74 |
|
|
BS00102338 |
909 |
|
|
|
|
|
|
BS00012409 |
1449 |
|
|
2A |
16.74 |
|
|
BS00017928 |
1824 |
|
|
|
|
|
|
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.