I am using gefitinib to inhibit the EGFR. I want to perform RT qPCR on EGFR target genes to make sure the drug is actually working.
Hi Cora,
I have never done RT qPCR on EGFR or its targets, but perhaps one of the following two websites can help you create your own primer pairs:
https://primerdepot.nci.nih.gov/
http://www.ncbi.nlm.nih.gov/tools/primer-blast/
Good luck
Your MEKK1 sequence is:
>gi|2815887|gb|AF042838.1| Homo sapiens MEK kinase 1 (MEKK1) mRNA, partial cds
CCGAGCCCTGAGGCAGGCGGCGGCGGAGGAGCCCTCAAGGCGAGCAGCGCGCGCGCGGCTGCCGCGGGAC
TGCTGCGGGAGGCGGGCAGCGGGGGCCGCGAGCGGGCGGACTGGCGGCGGCGGCAGCTGCGCAAAGTGCG
GAGTGTGGAGCTGGACCAGCTGCCTGAGCAGCCGCTCTTCCTTGCCGCCTCACCGCCGGCCTCCTCGACT
TCCCCGTCGCCGGAGCCCGCGGACGCAGCGGGGAGTGGGACCGGCTTCCAGCCTGTGGCGGTGCCGCCGC
CCCACGGAGCCGCCAGCCGGCGCGGCGCCCACCTTACCGAGTCGGTGGCGGCGCCGGACAGCGGCGCCTC
GAGTCCCGCAGCGGCCGAGCCCGGGGAGAAGCGGGCGCCCGCCGCCGAGCCGTCTCCTGCAGCGGCCCCC
GCCGGTCGTGAGATGGAGAATAAAGAAACTCTCAAAGGGTTGCACAAGATGGATGATCGTCCAGAGGAAC
GAATGATCAGGGAGAAACTGAAGGCAACCTGTATGCCAGCCTGGAAGCACGAATGGTTGGAAAGGAGAAA
TAGGCGAGGGCCTGTGGTGGTAAAACCAATCCCAGTTAAAGGAGATGGATCTGAAATGAATCACTTAGCA
GCTGAGTCTCCAGGAGAGGTCCAGGCAAGTGCGGCTTCACCAGCTTCCAAAGGCCGACGCAGTCCTTCTC
CTGGCAACTCCCCATCAGGTCGCACAGTGAAATCAGAATCTCCAGGAGTAAGGAGAAAAAGAGTTTCCCC
AGTGCCTTTTCAGAGTGGCAGAATCACACCACCCCGAAGAGCCCCTTCACCAGATGGCTTCTCACCATAT
AGCCCTGAGGAAACAAACCGCCGTGTTAACAAAGTGATGCGGGCCAGACTGTACTTACTGCAGCAGATAG
GGCCTAACTCTTTCCTGATTGGAGGAGACAGCCCAGACAATAAATACCGGGTGTTTATTGGGCCTCAGAA
CTGCAGCTGTGCACATGGAACATTCTGTATTCATCTGCTATTTGTGATGCTCCGGGTGTTTCAACTAGAA
CCTTCAGACCCAATGTTATGGAGAAAAACTTTAAAGAATTTTGAGGTTGAGAGTTTGTTCCAGAAATATC
ACAGTAGGCGTAGCTCAAGGATCAAAGCTCCATCTCGTAACACCATCCAGAAGTTTGTTTCACGCATGTC
AAATTCTCATACATTGTCATCATCTAGTACTTCTACATCTAGTTCAGAAAACAGCATAAAGGATGAAGAG
GAACAGATGTGTCCTATTTGCTTGTTGGGCATGCTTGATGAAGAAAGTCTTACAGTGTGTGAAGACGGCT
GCAGGAACAAGCTGCACCACCACTGCATGTCAATTTGGGCAGAAGAGTGTAGAAGAAATAGAGAACCTTT
AATATGTCCCCTTTGTAGATCTAAGTGGAGATCTCATGATTTCTACAGCCACGAGTTGTCAAGTCCTGTG
GATTCCCCTTCTTCCCTCAGAGCTGCACAGCAGCAAACCGTACAGCAGCAGCCTTTGGCTGGATCACGAA
GGAATCAAGAGAGCAATTTTAACCTTACTCATTATGGAACTCAGCAAATCCCTCCTGCTTACAAAGATTT
AGCTGAGCCATGGATTCAGGTGTTTGGAATGGAACTCGTTGGCTGCTTATTTTCTAGAAACTGGAATGTG
AGAGAGATGGCCCTCAGGCGTCTTTCCCATGATGTCAGTGGGGCCCTGCTGTTGGCAAATGGGGAGAGCA
CTGGAAATTCTGGGGGCAGCAGTGGAAGCAGCCCGAGTGGGGGAGCCACCAGTGGGTCTTCCCAGACCAG
TATCTCAGGAGATGTGGTGGAGGCATGCTGCAGCGTTCTGTCAATGGTCTGTGCTGACCCTGTCTACAAA
GTGTACGTTGCTGCTTTAAAAACATTGAGAGCCATGCTGGTATATACTCCTTGCCACAGTTTAGCGGAAA
GAATCAAACTTCAGAGACTTCTCCAGCCAGTTGTAGACACCATCCTAGTCAAATGTGCAGATGCCAATAG
CCGCACAAGTCAGCTGTCCATATCAACACTGTTGGAACTGTGCAAAGGCCAAGCAGGAGAGTTGGCAGTT
GGCAGAGAAATACTAAAAGCTGGATCCATTGGTATTGGTGGTGTTGATTATGTCTTAAATTGTATTCTTG
GAAACCAAACTGAATCAAACAATTGGCAAGAACTTCTTGGCCGCCTTTGTCTTATAGATAGACTGTTGTT
GGAATTTCCTGCTGAATTTTATCCTCATATTGTCAGTACTGATGTTTCACAAGCTGAGCCTGTTGAAATC
AGGTATAAGAAGCTGCTGTCCCTCTTAACCTTTGCTTTGCAGTCCATTGATAATTCCCACTCAATGGTTG
GCAAACTTTCCAGAAGGATCTACTTGAGTTCTGCAAGAATGGTTACTACAGTACCCCATGTGTTTTCAAA
ACTGTTAGAAATGCTGAGTGTTTCCAGTGTTTCCACTCACTTCACCAGGATGCGTCGCCGTTTGATGGCT
TATGCAGATGAGGTGGAAATTGCCGAAGCCATCCAGTTGGGCGTAGAAGACACTTTACAACGACAACAAC
ACAACAGCTTTTGCAGGCATCTGTTCCCAACAACTATCTGGAAACCACAGAGAACAGTTCCCCTTGAGTG
CACAGTCCATTTAGAGAAAACTGGAAAAGGATTATGTGCTACAAAATTGAGTGCCAGTTCAGAGGACATT
TCTGAGAGACTGGCCAGGATTTCAGTAGGACCTTCTAGTTCAACAACAACAACAACAACAACAACAGAGC
AACCAAAGCCAATGGTTCAAACAAAAGGCAGACCCCACAGTCAGTGTTTGAACTCCTCTCCTTTATCTCA
TCATTCCCAATTAATGTTTCCAGCCTTGTCAACCCCTTCTTCTTCTACCCCATCTGTACCAGCTGGCACT
GCAACAGATGTCTCTAAGCATAGACTTCAGGGATTCATTCCCTGCAGAATACCTTCTGCATCTCCTCAAA
CACAGCGCAAGTTTTCTCTACAATTCCACAGAAACTGTCCTGAAAACAAAGACTCAGATAAACTTTCCCC
AGTCTTTACTCAGTCAAGACCCTTGCCCTCCAGTAACATACACAGGCCAAAGCCATCTCGACCTACCCCA
GGTAATACAAGTAAACAGGGAGATCCCTCAAAAAATAGCATGACACTTGATCTGAACAGTAGTTCCAAAT
GTGATGACAGCTTTGGCTTGAGCAGCAATAGTAGTAATTGCTGTTATACCAGTGACGAGACAGTGTTCAC
CCCAGTAGAGGAGAAATGCAGATTAGATGTCAATACAGAGCTCAACTCCAGTATTGAGGACCTTCTTGAA
GCATCTATGCCTTCAAGTGATACAACAGTAACTTTTAAGTCAGAAGTTGCTGTCCTGTCTCCTGAAAAGG
CTGAAAATGATGATACCTACAAAGATGATGTGAATCATAATCAAAAGTGCAAAGAGAAGATGGAAGCTGA
AGAAGAAGAAGCTTTAGCAATTGCCATGGCAATGTCAGCGTCTCAGGTAGCCCTCCCCATAGTTCCTCAG
CTGCAGGTTGAAAATGGAGAAGATATCATCATTATTCAACAGGATACACCAGAGACTCTACCAGGACATA
CCAAAGCAAAACAACCGTATAGAGAAGACACTGAATGGCTGAAAGGTCAACAGATAGGCCTTGGAGCATT
TTCTTCTTGTTATCAGGCTCAAGATGTGGGAACTGGAACTTTAATGGCTGTTAAACAGGTGACTTATGTC
AGAAACACATCTTCTGAGCAAGAAGAAGTAGTAGAAGCACTAAGAGAAGAGATAAGAATGATGAGCCATC
TGAATCATCCAAACATCATTAGGATGTTGGGAGCCACGTGTGAGAAGAGCAATTACAATCTCTTCATTGA
ATGGATGGCAGGGGGATCGGTGGCTCATTTGCTGAGTAAATATGGAGCCTTCAAAGAATCAGTAGTTATT
AACTACACTGAACAGTTACTCCGTGGACTTTCGTATCTCCATGAAAACCAAATCATTCACAGAGATGTCA
AAGGTGCCAATTTGCTAATTGACAGCACTGGTCAGAGACTAAGAATTGCAGATTTTGGAGCTGCAGCCAG
GTTGGCATCAAAAGGAACTGGTGCAGGAGAGTTTCAGGGACAATTACTGGGGACAATTGCATTTATGGCA
CCTGAGGTACTAAGAGGTCAACAGTATGGAAGGAGCTGTGATGTATGGAGTGTTGGCTGTGCTATTATAG
AAATGGCTTGTGCAAAACCACCATGGAATGCAGAAAAACACTCCAATCATCTTGCTTTGATATTTAAGAT
TGCTAGTGCAACTACTGCTCCATCGATCCCTTCACATTTGTCTCCTGGTTTACGAGATGTGGCTCTTCGT
TGTTTAGAACTTCAACCTCAGGACAGACCTCCATCAAGAGAGCTACTGAAGCATCCAGTCTTTCGTACTA
CATGGTAGCCAATTATACAGATCAACTACGTAGAAACAGGATGCTCAACAAGAGAAAAAAAACTTGTGGG
GAACCACATTGATATCTACGGCCATGATGCCACTGAACAGCTATGAACGAGGCCAGTGGGGAACCCTTAC
CTAAGTATGTGATTGACAAATCATGATCTGTACCTAAGCTCAGTATGCAAAAGCCCAAACTAGTGCAGAA
ACT
Select the portion of the sequence you want to reproduce and apply the primer program: http://www.ncbi.nlm.nih.gov/tools/primer-blast/index.cgi?ORGANISM=9606&INPUT_SEQUENCE=AF042838.1&LINK_LOC=nuccore
This procedure will give you the adequate primers
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