How to extract CDS zones and nucleotides from this and put them in list to an secondary text file(Perl).
Hello, i have an small part of a human genom. I need to extract all CDS zones with the corresponding nucleotides sequences. Here is an example o wath shoul i have:
CDS 110679..111596 /gene="ENSG00000176695.8" /protein_id="ENSP00000467301.1" /note="transcript_id=ENST00000585993.3" /db_xref="CCDS:CCDS32854" /db_xref="Uniprot/SWISSPROT:Q8NGA8" /db_xref="RefSeq_peptide:NP_001005240" /db_xref="RefSeq_mRNA:NM_001005240" /db_xref="Uniprot/SPTREMBL:A0A126GWN0" /db_xref="UCSC:ENST00000585993.3" /db_xref="EMBL:AB065917" /db_xref="EMBL:BC136848" /db_xref="EMBL:BC136867" /db_xref="EMBL:KP290649" /db_xref="GO:0004888" /db_xref="GO:0004930"
/db_xref="GO:0004930" /db_xref="GO:0004930" /db_xref="GO:0004984" /db_xref="GO:0004984" /db_xref="GO:0005886" /db_xref="GO:0005886" /db_xref="GO:0007165" /db_xref="GO:0007186" /db_xref="GO:0007186" /db_xref="GO:0007186" /db_xref="GO:0007186" /db_xref="GO:0007608" /db_xref="GO:0016020" /db_xref="GO:0016021" /db_xref="GO:0016021" /db_xref="GO:0016021" /db_xref="GO:0050896" /db_xref="GO:0050911" /db_xref="HGNC_trans_name:OR4F17-202" /db_xref="protein_id:AAI36849" /db_xref="protein_id:AAI36868" /db_xref="protein_id:ALI87807" /db_xref="protein_id:BAC06132" /db_xref="Reactome:R-HSA-162582" /db_xref="Reactome:R-HSA-372790" /db_xref="Reactome:R-HSA-381753" /db_xref="Reactome:R-HSA-388396" /db_xref="Reactome:R-HSA-418555" /db_xref="UniParc:UPI0000041E2A" /translation="MVTEFIFLGLSDSQGLQTFLFMLFFVFYGGIVFGNLLIVITVVS DSHLHSPMYFLLANLSLIDLSLSSVTAPKMITDFFSQRKVISFKGCLVQIFLLHFFGG SEMVILIAMGFDRYIAICKPLHYTTIMCGNACVGIMAVAWGIGFLHSVSQLAFAVHLP FCGPNEVDSFYCDLPRVIKLACTDTYRLDIMVIANSGVLTVCSFVLLIISYTIILMTI QHRPLDKSSKALSTLTAHITVVLLFFGPCVFIYAWPFPIKSLDKFLAVFYSVITPLLN PIIYTLRNKDMKTAIRQLRKWDAHSSVKF"
110679.. 111596
ATGGTGACTGAATTCATTTTTCTGGGTCTCTCTGATTCTCAGGGACTCCAGACCTTCCTATTTATGTTGTTTTTTGTATTCTATGGAGGAAT CGTGTTTGGAAACCTTCTTATTGTCATAACAGTGGTATCTGACTCCCACCTTCACTCTCCCATGTACTTCCTGCTAGCCAACCTCTCACTCA TTGATCTGTCTCTGTCTTCAGTCACAGCCCCCAAGATGATTACTGACTTTTTCAGCCAGCGCAAAGTCATCTCTTTCAAGGGCTGCCTTGT TCAGATATTTCTCCTTCACTTCTTTGGTGGGAGTGAGATGGTGATCCTCATAGCCATGGGCTTTGACAGATATATAGCAATATGCAAACC CCTACACTACACTACAATTATGTGTGGCAACGCATGTGTCGGCATTATGGCTGTCGCATGGGGAATTGGCTTTCTCCATTCGGTGAGCC AGTTGGCCTTTGCCGTGCACTTACCCTTCTGTGGTCCCAATGAGGTCGATAGTTTTTATTGTGACCTTCCTAGGGTAATCAAACTTGCCTG TACAGATACCTACAGGCTAGATATTATGGTCATTGCTAACAGTGGTGTGCTCACTGTGTGTTCTTTTGTTCTTCTAATCATCTCATACACT ATCATCCTAATGACCATCCAGCATCGCCCTTTAGATAAGTCGTCCAAAGCTCTGTCCACTTTGACTGCTCACATTACAGTAGTTCTTTTGT TCTTTGGACCATGTGTCTTTATTTATGCCTGGCCATTCCCCATCAAGTCATTAGATAAATTCCTTGCTGTATTTTATTCTGTGATCACCCCT CTCTTGAACCCAATTATATACACACTGAGGAACAAAGACATGAAGACGGCAATAAGACAGCTGAGAAAATGGGATGCACATTCTAGTG TAAAGTTTTAG
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Hello emi_14_ar!
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