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BLAST - Exercise #6

The following sequence contains an open reading frame (ORF) in one of their 6 reading frames.

  1. Use the EMBL-EBI web based sequence tool to translate the sequences below.
    (http://www.ebi.ac.uk/Tools/emboss/transeq/index.html)
    Find the ORF in the correct reading frame (you must select “6” under the frames pull down menu before translating to see all 6 frames).
  2. Once you find the ORF protein sequence, perform a BLAST search at the EcoCyc web site (http://www.ecocyc.org/, located in the search menu) to determine the identity and function of the protein.
  3. Report the correct reading frame (+3, +2, +1, -1, -2, or -3), the translated sequence from the start methionine to the stop codon (you can assume the first methionine in the correct reading frame is the start methionine), the encoded protein name, and a brief description of its function.

 

Sequence #6:

TCGTTACCAATTATGACAACTTGACGGCTACATCATTCACTTTTTCTTCACAACCGGCAC
GAAACTCGCTCGGGCTGGCCCCGGTGCATTTTTTAAATACTCGCGAGAAATAGAGTTGAT
CGTCAAAACCAACATTGCGACCGACGGTGGCGATAGGCATCCGGGTAGTGCTCAAAAGCA
GCTTCGCCTGACTAATGCGTTGGTCCTCGCGCCAGCTTAAGACGCTAATCCCTAACTGCT
GGCGGAAAAGATGTGACAGACGCGACGGCGACAAGCAAACATGCTGTGCGACGCTGGCGA
TATCAAAATTGCTGTCTGCCAGGTGATCGCTGATGTACTGACAAGCCTCGCGTACCCGAT
TATCCATCGGTGGATGGAGCGACTCGTTAATCGCTTCCATGCGCCGCAGTAACAATTGCT
CAAGCAGATTTATCGCCAGCAGCTCCGAATAGCGCCCTTCCCCTTGCCCGGCGTTAATGA
TTTGCCCAAACAGGTCGCTGAAATGCGGCTGGTGCGCTTCATCCGGGCGAAAGAAACCCG
TATTGGCAAATATTGACGGCCAGTTAAGCCATTCATGCCAGTAGGCGCGCGGACGAAAGT
AAACCCACTGGTGATACCATTCGCGAGCCTCCGGATGACGACCGTAGTGATGAATCTCTC
CTGGCGGGAACAGCAAAATATCACCCGGTCGGCAGACAAATTCTCGTCCCTGATTTTTCA
CCACCCCCTGACCGCGAATGGTGAGATTGAGAATATAACCTTTCATTCCCAGCGGTCGGT
CGATAAAAAAATCGAGATAACCGTTGGCCTCAATCGGCGTTAAACCCGCCACCAGATGGG
CGTTAAACGAGTATCCCGGCAGCAGGGGATCATTTTGCGCTTCAGCCATACTTTTCA

 

Exercise #6 – Answer

Reading frame -2

KSMAEAQNDPLLPGYSFNAHLVAGLTPIEANGYLDFFIDRPLGMKGYILNLTIRGQGVVK
NQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAYWHEWLNWPSIFANTG
FFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRRMEAINESLHPPMDNR
VREACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQQLGISVLSWREDQRISQAKLL
LSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGASPSEFRAGCEEKVNDVAVKLS

AraC, transcriptional regulator of of several genes and operons involved in arabinose catabolism and transport