Table 3.

Protein-Coding Genes Corresponding to Small RNAs

Annotation	Accession Numbera	Chromosome (Small RNA Start Position)b	Small RNAc	Small RNA Orientation	Position in Gened	ESTse
Inorganic phosphate transporter	At1g20860	I (7255467)	23.1	Antisense	Intron	−
Cytochrome P450	At1g47630	I (16956099)	104.1	Sense	CR-intron	−
Hypothetical protein, no known similarities	At1g79970	I (29737207) I (29737208)	107.1 14.1	Antisense Antisense	Intron Intron	+
Weak cathepsin L similarity	At2g39160	II (16282272)	40	Antisense	CR	−
Zinc-finger/BTB domain–containing protein	At2g40440	II (16839165)	17.2f	Antisense	Intron	−
F-box–containing protein	At3g21170	III (7420343)	97	Sense	CR	−
Scarecrow-like	At4g00150	IV (57411)	39.1	Antisense	CR	+
Scarecrow-like	At3g60630	III (22420503)	39.2	Antisense	CR	−
Scarecrow-like	At2g45160	II (18567669)	39.4	Antisense	CR	+
Hypothetical protein, similar to nuclear protein in rice	At4g18980	IV (9360949)	24.19	Sense	Intron	−
Hypothetical protein, no known similarities	At4g27930	IV (12867464)	55	Antisense	CR	−
Ser carboxypeptidase–like	At5g22960	V (7660496) V (7659853) V (7659933) V (7660416)	90.1 90.2 101.1 101.2	Sense Antisense Sense Antisense	Intron CR CR Intron	−
Hypothetical protein, no known similarities	At5g56070	V (22423005)	2.2	Antisense	CR	−
Hypothetical protein, no known similarities	At5g49590	V (19422956)	105.2	Antisense	Intron	−
Hypothetical protein, no known similarities	At4g34690	IV (15520101)	124	Antisense	CR	−
SKI2-like RNA helicase protein	At5g61140	V (24315538)	110.2	Sense	Intron	+

^aDetermined by BLAST search with the small RNA sequence.

^bFirst nucleotide position in the chromosome corresponding to the small RNA sequence.

^cUnique code for each small RNA or small RNA locus.

^dLocation of the corresponding small RNA sequence in the gene. CR, coding region.

^e+, EST in GenBank; −, no EST in GenBank.

^fSmall RNA 17 contained a single mismatch relative to the published Arabidopsis genome sequence.