Go Back   Science Forums Biology Forum Molecular Biology Forum Physics Chemistry Forum > Molecular Research Topics Forum > PCR - Polymerase Chain Reaction Forum
Register Search Today's Posts Mark Forums Read

PCR - Polymerase Chain Reaction Forum PCR - Polymerase Chain Reaction Forum. Discuss and ask questions about PCR troubleshooting, PCR protocols and methods, PCR products, and PCR theory.


mRNA Search for RT-PCR (U to T) Rate Topic:

mRNA Search for RT-PCR (U to T) Rate Topic: - PCR - Polymerase Chain Reaction Forum

mRNA Search for RT-PCR (U to T) Rate Topic: - PCR - Polymerase Chain Reaction Forum. Discuss and ask questions about PCR troubleshooting, PCR protocols and methods, PCR products, and PCR theory.


Reply
 
LinkBack Thread Tools Display Modes
  #1  
Old 03-23-2011, 04:43 PM
Pipette Filler
Points: 66, Level: 1 Points: 66, Level: 1 Points: 66, Level: 1
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Mar 2011
Posts: 2
Thanks: 0
Thanked 0 Times in 0 Posts
Default mRNA Search for RT-PCR (U to T) Rate Topic:



Hi All,
I am new to this but will be really grateful if someone knowledgeable can help me with this. I am trying to design primers for RT-PCR. I am assuming here that I will have to find an mRNA sequence of interest and then design complementary primers for the mRNA sequence.
When I search for mRNA sequence in nucleotide or genebank I get sequences that do not have Uracil (u) but have thymine (T) in the sequence. Should the RNA not have (u) substituted for (t)?
'f9or eg search for " Mus musculus platelet derived growth factor receptor, beta polypeptide (Pdgfrb), transcript variant 1, mRNA" in nucleotides. Is the sequence displayes of 1) mRNA, 2) cDNA or 3) orginal gene (DNA).
Thanks
Reply With Quote
  #2  
Old 03-25-2011, 09:50 PM
luisillo's Avatar
M.D/Ph.D
Points: 4,149, Level: 43 Points: 4,149, Level: 43 Points: 4,149, Level: 43
Activity: 33% Activity: 33% Activity: 33%
 
Join Date: Jul 2010
Location: Mexico
Posts: 354
Thanks: 20
Thanked 98 Times in 90 Posts
Default Re: mRNA Search for RT-PCR (U to T) Rate Topic:

Aren't the mRNA sequences displayed as cDNA sequences? I haven't used GeneBank lately but I think there aren't RNA sequences on it. Only genomic DNA, cDNA and/or their respective aminoacid sequence. In other words, you'll never see a U (uracil) in a genebank sequence entry.

For primer designing purposes it doesn't matter if it is shown as U or T, in the end you'll need an A to make your primer anneal properly.
Reply With Quote
  #3  
Old 03-26-2011, 06:27 AM
Pipette Filler
Points: 66, Level: 1 Points: 66, Level: 1 Points: 66, Level: 1
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Mar 2011
Posts: 2
Thanks: 0
Thanked 0 Times in 0 Posts
Default Re: mRNA Search for RT-PCR (U to T) Rate Topic:

luisillo,
Thanks for your answer. I think you are correct that mRNA sequence is displayed as cDNA. Would anyone know what is the reason.
Reply With Quote
Reply

Tags
basics , mrna , pcr , question , rate , rt-pcr , rtpcr , search , topic


Thread Tools
Display Modes

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off
Trackbacks are On
Pingbacks are On
Refbacks are On

Forum Jump

Similar Threads
Thread Thread Starter Forum Replies Last Post
Moving Dimensions Theory Book Due Out in Fall 05--Very Rough Draft: 4th Dimensions Expanding Relative to 3 Spatial Dimensions jollyrogership@yahoo.com Physics Forum 64 03-31-2012 10:24 AM
Simply put, MOVING DIMENSIONS THEORY is THE NEW MODEL: http://physicsmathforums.com drelliot@gmail.com Physics Forum 0 08-29-2006 06:32 AM
Moving Dimensions Theory!! Rock On!! drelliot@gmail.com Physics Forum 1 07-06-2006 05:19 PM
EXPLAINING TIME DILATION TomGee Physics Forum 24 11-18-2004 01:52 AM


All times are GMT. The time now is 01:03 AM.


Powered by vBulletin® Version 3.8.4
Copyright ©2000 - 2014, Jelsoft Enterprises Ltd.
Copyright 2005 - 2012 Molecular Station | All Rights Reserved
Page generated in 0.15870 seconds with 16 queries