A primer for amplifying a nucleic acid having a structure represented by formula (1):

##STR00001##

where A.sub.1 represents —S—, —S—S—, or —Se—, B represents a base, and R.sub.1 represents a decomposable protecting group, and the symbol * represents a bond to a sugar of an adjacent nucleotide. A device for producing double-stranded DNA includes: a forward primer and a reverse primer, having a structure represented by formula (1); a PCR device for forming double-stranded DNA with 3′-recessed ends by performing multiple cycles of PCR by using a template DNA as a template; Klenow fragment for making the 3′ ends blunt; and a photoirradiation unit for deprotecting R.sub.1 and forming a sticky end with a 3′-protruding end.

A primer for amplifying a nucleic acid having a structure represented by formula (1):

##STR00001##

where A.sub.1 represents —S—, —S—S—, or —Se—, B represents a base, and R.sub.1 represents a decomposable protecting group, and the symbol * represents a bond to a sugar of an adjacent nucleotide. A device for producing double-stranded DNA includes: a forward primer and a reverse primer, having a structure represented by formula (1); a PCR device for forming double-stranded DNA with 3′-recessed ends by performing multiple cycles of PCR by using a template DNA as a template; Klenow fragment for making the 3′ ends blunt; and a photoirradiation unit for deprotecting R.sub.1 and forming a sticky end with a 3′-protruding end.

A method of sequencing nucleic acids is provided using sequencing by ligation and/or sequencing by hybridization.

A method of sequencing nucleic acids is provided using sequencing by ligation and/or sequencing by hybridization.

Embodiments of the present disclosure relate to nucleotide molecules with a 3′ AOM blocking group. Also provided herein are methods to prepare such nucleotide molecules, and the uses of fully functionalized nucleotides containing the 3′-OH blocking group for sequencing applications.

Embodiments of the present disclosure relate to nucleotide molecules with a 3′ AOM blocking group. Also provided herein are methods to prepare such nucleotide molecules, and the uses of fully functionalized nucleotides containing the 3′-OH blocking group for sequencing applications.

The invention provides nucleotide analogues and methods of use thereof for sequencing by synthesis using energy transfer dye pairs.

The invention provides nucleotide analogues and methods of use thereof for sequencing by synthesis using energy transfer dye pairs.

Embodiments of the present disclosure relate to sequencing methods using nucleotide molecules with a 3′ AOM blocking group, which can provide reduced phasing and pre-phasing values. Also provided herein are kits related to such sequencing methods.

Embodiments of the present disclosure relate to sequencing methods using nucleotide molecules with a 3′ AOM blocking group, which can provide reduced phasing and pre-phasing values. Also provided herein are kits related to such sequencing methods.