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Bioinformatics: Playing with the Genome Letters using Computers

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Antonio Pérez-Pulido

on 27 June 2014

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Transcript of Bioinformatics: Playing with the Genome Letters using Computers

The genome contains genes
Bioinformatics: Playing with the Genome Letters using Computers
3D structure
(tool)
Mutant
Antonio J. Pérez Pulido
Senior lecturer (Genetics Area, UPO)
Bioinformatics Group (CABD)

Handbook
Chapter
Chapter photocopies
Tools
Making tools using a handbook

GCGGGAGGATCGCTTGAGCTCGGGAGGTCGAGGCTGCAATGAGCCGAGATGGTGCCACTGCACTCTGACGACAGAGCGAGACTCCGTCTCAAAACAAACAACAAATAAGGTTGGGGGATCAAATATCTTCTAGTGTTTAAGGATCTGCCGCCTTCCTTCCTGCCCCCATGTTTGTCTTTCCTTGTTTGTCTTTATATAGATCAAGCAGGTTTTAAATTCCTAGTAGGAGCTTACATTTACTTTTCCAAGGGGGAGGGGGAATAAATATCTACACACACACACACACACACACACACACACACACACACACTGGAGTTCGAGACGAGGCCTAAGCAACATGCCGAAACCCCGTCTCTACTAAATACAAAAAATAGCTGAGCGTGGTGGCGCACGCCTATAGTCCTAGCTACTGGGGAGGCTGAGGTGGGAGGATCGCTTGAGCCCAAGAAGTCGAGGCTGCAGTGAGCCGAGATCGCGCCGCTGCACTCCAGCCTGAGCGACAGGGCGAGGCTCTGTCTCAAAACAAACAAACAAAAAAAAAAGGAAAGGAAATATAACACAGTGAAATGAAAGGATTGAGAGAAATGAAAAATATACACGCCACAAATGTGGGAGGGCGATAACCACTCGTAGAAAGCGTGAGAAGTTACTACAAGCGGTCCTCCCGGCCACCGTACTGTTCCGCTCCCAGAAGCCCCGGGCGGCGGAAGTCGTCACTCTTAAGAAGGGACGGGGCCCCACGCTGCGCACCCGCGGGTTTGCTATGGCGATGAGCAGCGGCGGCAGTGGTGGCGGCGTCCCGGAGCAGGAGGATTCCGTGCTGTTCCGGCGCGGCACAGGCCAGGTGAGGTCGCAGCCAGTGCAGTCTCCCTATTAGCGCTCTCAGCACCCTTCTTCCGGCCCAACTCTCCTTCCGCAGCCTCGGGACAGCATCAAGTCGATCCGCTCACTGGAGTTGTGGTCCGCGTTTTTCTACGTCTTTTCCCACTCCGTTCCCTGCGAACCACATCCGCAAGCTCCTTCCTCGAGCAGTTTGGGCTCCTTGATAGCGTTGAGTGGAGGCCCTGCCGCGACTTGGCAGTAGCTTATTTTGTTCACTCCTCTCTGGCTGGTGTGGGGGAGGTGGGGGCATTAGGCCAGGGTGAAGCAGGGGAACCACTTAGGAGTCTGTTAAGATGATCTGAACTTCAGAACAAGATGTTATTAACAGAGTGAAAGTATTTGGATTCTGGGTATATTTTGAAATCGGAGGCAACAGGTTTTTCAGATAGATTCGATAACGGAGGTTATCCTGAATAGTTGAAAAGATAAAGTTGCCTTTTGCTGAGGTGGGAAAGAGAAGATTGCCAGTAGAGCAGGTTTCTCAGGAGTTCAGTCTTG...
The messenger RNA
GCGGGAGGAUCGCUUGAGCUCGGGAGGUCGAGGCUGCAAUGAGCCGAGAUGGUGCCACUGCACUCUGACGACAGAGCGAGACUCCGUCUCAAAACAAACAACAAAUAAGGUUGGGGGAUCAAAUAUCUUCUAGUGUUUAAGGAUCUGCCGCCUUCCUUCCUGCCCCCAUGUUUGUCUUUCCUUGUUUGUCUUUAUAUAGAUCAAGCAGGUUUUAAAUUCCUAGUAGGAGCUUACAUUUACUUUUCCAAGGGGGAGGGGGAAUAAAUAUCUACACACACACACACACACACACACACACACACACACACACUGGAGUUCGAGACGAGGCCUAAGCAACAUGCCGAAACCCCGUCUCUACUAAAUACAAAAAAUAGCUGAGCGUGGUGGCGCACGCCUAUAGUCCUAGCUACUGGGGAGGCUGAGGUGGGAGGAUCGCUUGAGCCCAAGAAGUCGAGGCUGCAGUGAGCCGAGAUCGCGCCGCUGCACUCCAGCCUGAGCGACAGGGCGAGGCUCUGUCUCAAAACAAACAAACAAAAAAAAAAGGAAAGGAAAUAUAACACAGUGAAAUGAAAGGAUUGAGAGAAAUGAAAAAUAUACACGCCACAAAUGUGGGAGGGCGAUAACCACUCGUAGAAAGCGUGAGAAGUUACUACAAGCGGUCCUCCCGGCCACCGUACUGUUCCGCUCCCAGAAGCCCCGGGCGGCGGAAGUCGUCACUCUUAAGAAGGGACGGGGCCCCACGCUGCGCACCCGCGGGUUUGCUAUGGCGAUGAGCAGCGGCGGCAGUGGUGGCGGCGUCCCGGAGCAGGAGGAUUCCGUGCUGUUCCGGCGCGGCACAGGCCAGGUGAGGUCGCAGCCAGUGCAGUCUCCCUAUUAGCGCUCUCAGCACCCUUCUUCCGGCCCAACUCUCCUUCCGCAGCCUCGGGACAGCAUCAAGUCGAUCCGCUCACUGGAGUUGUGGUCCGCGUUUUUCUACGUCUUUUCCCACUCCGUUCCCUGCGAACCACAUCCGCAAGCUCCUUCCUCGAGCAGUUUGGGCUCCUUGAUAGCGUUGAGUGGAGGCCCUGCCGCGACUUGGCAGUAGCUUAUUUUGUUCACUCCUCUCUGGCUGGUGUGGGGGAGGUGGGGGCAUUAGGCCAGGGUGAAGCAGGGGAACCACUUAGGAGUCUGUUAAGAUGAUCUGAACUUCAGAACAAGAUGUUAUUAACAGAGUGAAAGUAUUUGGAUUCUGGGUAUAUUUUGAAAUCGGAGGCAACAGGUUU
Protein
>SMN
MAMSSGGSGGGVPEQEDSVLFRRGTGQSDDSDIWDDTALIKAYDKAVASFKHALKNGDICETSGKPKTTPKRKPAKKNKSQKKNTAASLQQWKVGDKCSAIWSEDGCIYPATIASIDFKRETCVVVYTGYGNREEQNLSDLLSPICEVANNIEQNAQENENESQVSTDESENSRSPGNKSDNIKPKSAPWNSFLPPPPPMPGPRLGPGKPGLKFNGPPPPPPPPPPHLLSCWLPPFPSGPPIIPPPPPICPDSLDDADALGSMLISWYMSGYHTGYYMGFRQNQKEGRCSHSLN
Genetic code
Y->G
Flow of
genetic
information
in cells
Sequence analysis
If you put sequentially the genome letters of all your cells, they went round the earth 1500 times
Park of Sciences
(Granada, 2011)
new sequence
Database with millions of known sequences
ribosome
DNA: ACGT
>chromosome 5 : 70,220,168-70,250,369 (gene smn)
Sequence alignment
RNA:
T->U
http://www.bioinfocabd.upo.es
Examples:
Hemoglobin: oxygen transport
Actin: muscular movement
Photopsin: retina photoreceptor
Full transcript