HOMEWORK#6

1. Please find the gene for the lipid transfer protein that you showed the structures in homework 5.
 Ans:>gi|19038|emb|X60292.1|HVLTP1G Hordeum vulgare gene for LTP 1
        1 tccacaactc atgagcatca cggaatggca tgagttgaaa tataactaca ttgctcaaag
       61 caacaaaaag cacattagaa tcttgagcat tgagataaga gtttttctca tgctctaaat
      121 atatattttg agaatccttt ggaggagaaa aatccatatt tacaattcgt tgtaaatttg
      181 agtccatgat cctaaagaga ttaagcatgc gaattaccca aacatcaaaa tttgtgccat
      241 tgaaactaag agtgttagag aatcctaatc ccctagttga catacttact ctctaggtgg
      301 tgaaacctaa taatgagaga tctagctcta ataccaattg agaggatgtg gatgtcgcct
      361 agaggggcgg tgaataggcg ctttaaaata attacggttt aggctcgaac aaatgtggaa
      421 taaaactaac gtttcatttg tcaagcgcaa aacctaaaac aactaggctc acctatgtgc
      481 accaacaact tatgataagc aagataaaaa aactaagtga tggcagaata tataacaaga
      541 aacaatatgg ctatcacaaa gtgaagtgca taagtaaaca gctcgggtaa gggacaaccg
      601 agccatgcgg agacgacgat gtatcctcaa gttcacacac ttgcggatgc taatctccgt
      661 ttgaagcagt gtggaggcac aatcgtcccc aagaagccac taaggccacc gtaatctcct
      721 cacgccctcg cacaatcgaa gatgttgtga ttccactaag ggacccttga gggcagtcac
      781 tgaacccgta taaacatggt tggaacaatc tccacgactt aattggagac tcccaacaac
      841 accacgaacc ttcatcataa cgaaatatgg cttcgaggta acctcaaatg ctcggggcaa
      901 tttttacaac ctaattgaag acctcgacgc ttgcgtggag ctttacacta taatgattga
      961 gctccaaggg catcaccaag cttctatgac gccaaaacat ccaagaaaga tatgtactag
     1021 gataccaagc acccaagagt aaacggagga agtataatat aaggccctgt ttgataacaa
     1081 agtagtaaaa aaactaaagt attaaaaact gcagtaattt tacgtgtaga tagaaaatac
     1141 catggtttta atataataat attttttgca gtattcacaa tgtagagaaa ctgtttgatt
     1201 acgccacata ttactgcagt ttagatcgag caagtacacg ggaagaagat aacgacgtcc
     1261 caccccttct tttcgccttc tctgtttttt aaaaagaggt ctggggttag ttttttcaat
     1321 actgcagttt taaaatcaca attcttagag gcaaccgaaa cacctcattg taaataaaac
     1381 tatgataatc tccaaaactg cagtattcta aaaatactac aaaaattctt tgttatcaaa
     1441 cagggcctaa ggagttaaaa aaatttagcc gtaactgaga ctcggcgagg caccagcagc
     1501 tagcagtcat caacacttga tggttggcaa aggcgagtcg acgtgtcgcg gggctcggcc
     1561 tgagcgggag atacaatctg ttctccagta accccgtcga tttggcccgc cgactaaagc
     1621 atccaggcat ctctcgctcg aacccctatt taagcccctc cattcctccc aacattctcc
     1681 acacctccac gagttgctca tcactagcta gtacgttgta ctgttagcta cagattaaga
     1741 agtgatcatg gcccgcgctc aggtactgct catggccgcc gccttggtgc tgatgctcac
     1801 ggcggccccg cgcgctgccg tggccctcaa ctgcggccag gttgacagca agatgaaacc
     1861 ttgcctgacc tacgttcagg gcggccccgg cccgtccggc gaatgctgca acggcgtcag
     1921 ggatctccat aaccaggcgc aatcctcggg cgaccgccaa accgtttgca actgcctgaa
     1981 ggggatcgct cgcggcatcc acaatctcaa cctcaacaac gccgccagca tcccctccaa
     2041 gtgcaatgtc aacgtcccat acaccatcag ccccgacatc gactgctcca ggtgattaaa
     2101 tttacactca tccagagtga aatctttaaa aagaactata tttacgaacg gagtgagtat
     2161 ataggaacat tcatccacgt aaaatttgtt gatattaaca ttaacacgca tgattgacct
     2221 gcaggattta ctgagcgacg atccgtcaag ctggtgctca gctcatcgat ccacgtggag
     2281 ctgaagcgcg cagcctctgt ccctatgtag tatggctacc agttatgccg agtttatgct
     2341 gaataagaac tctctcctgt actcctttgg aggagatcag tatctatgta cgtgagagtt
     2401 gagagtttgt accatcggca ctcccagtgt ttatggacta tatgcataca cctccttctg
     2461 tgctcagtgt gtaacttgtc tctctgtttc ctcacgttcg cgtctcatat aataatttac
     2521 ttatgtgctc taggatcgta gtacagtatc atatatatac ctctctatga attagtttac
     2581 cgtagaccgt atgtttcttg aatctggatg aaaattacgg attcaagcgt gcgtcccgca
     2641 tataataagc ttgcttacgg attcaagcgt gcgtcacgcg gctcagtaga tgatgaggat
     2701 actcgctgct gcatctctac atcccgctca tgagctgagc tgagcccggg tcctcccccg
     2761 ctccggcccg ctggccaccc cggccggccg accctcaaac agccttcatg acgagccgcc
     2821 cgccagcaag atctgttggc tcctcccctg tccgtcgtag agaaacccag cgca

2. How many sequences of DNA and Protein have been known for barley?
 Ans: DNA---> 2205
      Protein---> 1959

3. How many BLAST hits you can get if you use the gene you found for this protein as the query sequence to search against non-redundant GenBank + EMBL + DDBJ + PDB sequence database? Please also show 10 sequences that produce significant alignments ( you just need to show their names and ID numbers ).
 Ans:
(1)  503,346 sequences

(2)
    emb|X59253|HVLTP1  H.vulgare rearranged Ltp1 gene for lipid transfer protein
    emb|X05168|TAMYR1  Barley mRNA for put. amylase or protease inhibitor  
    emb|Y14573.1|HVCH4H  Hordeum vulgare DNA for chromosome 4H       
    emb|X63669|TDLTPAA  T.durum mRNA for lipid transfer protein       
    emb|X71667|SVLTP1  S.vulgare ltp1 gene                            
    emb|Z23271|OSLPTPRA  O.sativa lipid transfer protein gene, complete cds
    emb|X83435|OSLTPA15  O.sativa mRNA for lipid transfer protein,a15
    emb|X71669|SVTLP1R  S.vulgare ltp1 mRNA
    gb|AF017359.1|AF017359  Oryza sativa lipid transfer protein
    emb|X83434|OSLTPB1  O.sativa mRNA for lipid transfer protein