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BHQnova Probes

BHQnova™ Probes are a double-quenched probe format that improves quenching efficiency and signal release. This quencher configuration is particularly suited to longer probes sequences, typically 25 bases or longer, which otherwise may suffer from poor quenching efficiency as traditional end-labeled probes.

What distinguishes BHQnova probes is the incorporation of the new internal “Nova” quencher between base residues 9 & 10. The system of dye modifications and their precise position within the strand improves assay function for qPCR applications such as gene expression analysis, copy number variation, and infectious disease detection.

The internal Nova quencher improves the signal-to-noise ratio of longer probe sequences, as may be necessary to achieve the proper melting temperature, or TM. The double-quenched configuration overcomes the upper limit on sequence length, to achieve robust amplification curves irrespective of base composition. Now probes can be targeted to AT-rich regions without sacrificing their performance characteristics.

BHQnova amplification curve qPCR amplification curves comparing a BHQnova probe (red) and a standard end-labeled probe (black) of the same 35-base sequence. The BHQnova probe reveals improved quenching efficiency in the raw data at left, before baseline subtraction. The normalized amplification data at right better illustrates the dramatic improvement in signal response.

Design Recommendations for BHQnova probes:

BHQnova probes provide the greatest benefit for probe designs that are 25 bases or longer. For those shorter than 25 bases, a standard (dual labeled) BHQ® probe may be perfectly satisfactory.

BHQnova probes contain the internal Nova quencher modification by default. This second quencher is always incorporated at the same position, and so there is no need to designate the internal modification within the sequence itself. When using the web order form, as below, the Nova quencher will automatically be incorporated upon adding to the shopping cart. When submitting an Excel file, select “BHQ-1 nova” within the field for 3’ Modification.

BHQnova probes are perfectly compatible with other probe formats within multiplexed configurations. Barring any sequence interactions, you can combine BHQnova probes with standard BHQ probes or BHQplus® probes, all within the same reaction.

Product listing

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This sequence is too short. Click here for help.
This probe sequence is shorter than our recommended criteria for probe length. You may want to consider ordering this sequence as a dual-labeled BHQ probe or BHQplus® probe dual-labeled BHQ probe or BHQplus® probe instead.
You may want to consider ordering an internally quenched probe for sequences 30 bases or longer.
A surcharge has been applied to the price of this probe because the sequence length is longer than 35 bases.
A surcharge has been applied to the price of this probe because the sequence length is longer than 50 bases.
This oligo sequence is too long. Please contact customer service info@biosearchtech.com for a quote or click here for help.
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The internal modification you used in the sequence is not available with this 5' Modification. You need to remove it from your sequence.
Are you trying to include RNA bases? RNA bases are not allowed in standard BHQ probes and so the R character will be treated as a DNA wobble instead (A/G). Please use the custom oligo form custom oligo form to order these modifications or click here for help.
Are you trying to include RNA bases? RNA bases are not allowed in BHQnova probes and so the R character will be treated as a DNA wobble instead (A/G). Please click here for help.
Are you trying to include RNA bases? RNA bases are not allowed in standard BHQplus probes and so the R character will be treated as a DNA wobble instead (A/G). Please use the custom oligo form custom oligo form to order these modifications or click here for help.
RNA bases are not allowed in standard Molecular Beacons. Please use the custom oligo form custom oligo form to order these modifications or click here for help.
Inosine modifications are not allowed in standard BHQ probes. Please order on the custom oligo form custom oligo form or click here for help.
Inosine modifications are not allowed in standard Nova probes. Please order on the custom oligo form custom oligo form or click here for help.
An invalid character has been entered into this sequence. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
Illegal character(s) were entered. Please review your sequence information.
Internal modifications are not allowed in standard Molecular Beacons. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
Internal modifications are not allowed in standard BHQplus probes. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
Internal modifications are not allowed in standard Nova probes. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
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This primer sequence is too long. Use the custom oligo order form custom oligo order form to order a long unlabeled oligo or click here for help.
This oligo contains a number of 'wobbles'. Please consider limiting this to one trinucleotide wobble and one dinucleotide wobble in two different locations or three dinucleotide wobbles in three different locations such that there is a maximum of 6 variants in a single oligonucleotide.
Inosine modifications must be included in brackets such as [I] or [i].
Internal modifications are not allowed in standard primers. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
No special modifications are allowed in BHQplus® probes and primers. Use the custom oligo order form custom oligo order form to order sequences with specialty modifications or click here for help.
Illegal character(s) were entered. Please review your sequence information.
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This sequence is too short. Click here for help.
This primer sequence is too long. Use the custom oligo order form custom oligo order form to order a long unlabeled oligo or click here for help.
This oligo contains a number of 'wobbles'. Please consider limiting this to one trinucleotide wobble and one dinucleotide wobble in two different locations or three dinucleotide wobbles in three different locations such that there is a maximum of 6 variants in a single oligonucleotide.
Inosine modifications must be included in brackets such as [I] or [i].
Internal modifications are not allowed in standard primers. Please order this sequence as a custom oligonucleotide custom oligonucleotide or click here for help.
No special modifications are allowed in BHQplus® probes and primers. Use the custom oligo order form custom oligo order form to order sequences with specialty modifications or click here for help.
Illegal character(s) were entered. Please review your sequence information.
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