Contig Sequence
Contig name: BC000005895 (Nimblegen Contig name: NO NIMBLEGEN CONTIG)
Contains SNP BS00009606 at position 1131 (ambiguity code highlighted in red in the sequence below).
ATGGGGTACCAAGTGGTGGCGGCGCAGCTGGCGCGGCTGAGCGGCGCGCTGGGCACCTCGGACCACGCCTCCGTGGTCTCCATCACCCTCTTCGTCGCGCTGCTCTGCGCCTGCATCGTCCTCGGCCACCTGCTCGAGGAGAACCGCTGGCTCAACGAGTCCATCACCGCCCTCATCATCGGGCTGTGCACCGGCGTGGTGATCCTGATGACCACCAAGGGGAAGAGCTCGCACGTGCTCGTCTTCAGCGAGGACCTCTTCTTCATCTACCTCCTGCCTCCCATCATCTTCAACGCCGGTTTCCAGGTGAAGAAGAAGCAGTTCTTCCGGAATTTCATGACAATCACACTATTTGGTGCCGTTGGGACGATGATGTCGTTTTTCACAATATCTCTTGCTGCCATTGCGATATTCAGCAGGATGAACATTGGGACACTGGATGTATCAGATTTTCTTGCAATTGGAGCTATCTTTTCCGCGACAGATTCTGTCTGCACTCTACAGGTTCTCAATCAGGACGAGACGCCCTTTTTGTACAGTCTAGTGTTCGGGGAAGGTGTTGTGAACGATGCCACATCGGTCGTGCTTTTCAACGCGCTCCAGAACTTCGATCCTAACCAGATCGACGCGATCGTCATTCTGAAGTTCTTGGGGAACTTCTGCTACTTATTCGTGTCAAGCACCTTCCTTGGAGTGTTTACTGGATTGCTTAGTGCATACGTCATCAAGAAGTTATACATAGGAAGGCATTCTACTGACCGTGAGGTTGCACTTGTGATGCTCATGGCCTACCTCTCATATATGCTAGCTGAGCTGCTAGATTTGAGTGGTATCCTCACTGTATTCTTCTGTGGTATTGTGATGTCACATTACACTTGGCACAACGTGACAGAGAGCTCAAGAGTTACAACAAAGCATGCATTTGCAACCTTGTCCTTCATCGCTGAGACTTTTCTCTTCCTTTATGTTGGGATGGATGCACTGGATATTGAGAAGTGGAAATTTGCTAGTGACAGCCCCGGCAAATCCATTGGAATAAGCTCAATTTTGCTCGGGTTGGTTCTGGTTGGAAGAGCTGCTTTCGTCTTCCCGCTCTCGTTCTTATCCAACCTGACAAAGAAGACGGAGCT[Y]GAAAAAATAAGCTGGAGGCAGCAAATCGTAATATGGTGGGCTGGGCTGATGAGAGGAGCTGTGTCGATCGCTCTTGCTTACAATAAGTTTACAAGATCTGGTCACACACAGCTGCACGGCAACGCGATAATGATCACCAGCACCATCACTGTCGTTCTGTTTAGCACTATGCTGTTTGGCATTTTGACAAAGCCTCTGATCCGGTTCCTACTGCCCGCGTCGAGCAATGGCGCCGCCTCAGATCCCGCGTCACCGAAGTCCCTGCACTCTCCTCTCCTCACAAGCCAGCTAGGCTCGGACCTGGAGGCGCCTCTCCCCATCGTGAGGCCCTCCAGCCTCCGGATGCTCATCACCAAGCCGACCCACACCATCCACTACTACTGGCGCAAGTTTGACGACGCGCTGATGCGCCCGATGTTCGGAGGGCGCGGGTTCGTGCCCTACTCCCCAGGATCACCCACCGATCCGAACGTACTCGTGGAATGAACGTCGCGAAGAAGCAACGGAGAAGCCATTACAGCTTCAGGAGACACTCTGAACTGTAACAGGAAGGGAAGGAAGTGTCACAGCTTCAGAAGAACGCGAAGTCTCCGGTAATATTATAGCGTTTGGCAGACTCGGAAGGCTGAAGAAGGCGGCCCTCCGATGATGGTTCAGATGAACGGTTGGTTGCGGCACCGACAGGAAGATGAACCCTAGTAACGGTGATGCGAGTATCATCATCGCCTTATCGGTTACGACAAAGCCTGTACAGTTTTGTATGTAGATTAACAAGCCAATTGTATCCTATGAGATCTCCGTTGGCAGGCAGGCGTCTGACCTCCTGCATCTGCGACGACCGCGGCGTGGCCAAGGCCGGGTGCGGGCGGTCGTACGCGCCGTTCCCGCCCGGGTGCATGTTCCACAGCGAGGGCGGGCTCAAGAGCTTCGAGCACCCCATGAACCGCCTTAAGGCGCTCCCCAGGGTGGACAGCGAGGGCGTCATGTGCGGCGCCAACTTCAAGGTCGACGCCTTCACCAAGATCAACTCCATGCCCCGCGTCGGCAGCGCCACCAACTGGGCCGCCGCCTGGGACGACGCCGCCATCTGATCCTCGCCGGCGCCGGCGTTGCTCTCCGTCGTGGCCTCGTCGGGCTTGGGCTTATTGCATTTTACTTGTTTTTCTTTCCTTGGCAATGTACATTCTGATCTGATCTGATCTGAGCCGTGTGTGGGCGTGGGCGCGCTGGCACGTACGGCTGTTTGCTTGTACGATGGAGGAATAAGACTTTGCTTCCAGTCCAAAAAAAAAAAAAAAAAA
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 3 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 |
BS00009576 |
1020 |
|
|
|
|
|
|
BS00009606 |
1131 |
2D |
68.20 |
|
|
|
|
BS00012008 |
1684 |
|
|
|
|
|
|
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.