Systematic characterization of novel lncRNAs responding to phosphate starvation in Arabidopsis thaliana

BMC Genomics

Table 1 P1BS motif of PHR1 targeted protein-coding genes and lncRNAs

GeneID/Name	No. Motif	Position of P1BS motif^b	Motif sequence	Cluster ID^c
AtPAP10 ^a	1	-122	GAATATTC	2
PAP1 ^a	2	-656,-191	GCATATAC,GAATATCC	1
AtACP5 ^a	1	-288	GAATATCC	1
AtSPX1 ^a	3	-124,-881,-100	GGATATTC,GAATATTC,GAATATTC	1
SQD1 ^a	1	-663	GAATATGC	1
AtIPS1 ^a	2	-763,-729	GCATATTC,GCATATTC	1
SQD2 ^a	3	-188,-136,-572	GCATATGC,GTATATCC,GAATATTC	2
At4 ^a	2	-1028,-490	GTATATGC,GCATATTC	1
RNS1 ^a	1	-188	GTATATAC	1
AtPT1 ^a	3	-1301,-1283,-200	GGATATTC,GCATATTC,GTATATAC	3
AtPT2 ^a	3	-394,-388,-1349	GAATATGC,GCATATAC,GAATATAC	1
AT5G53048	1	-142	GTATATTC	1
AT1G21529	1	-81	GAATATCC	1
AT3G57157	2	-1760,-240	GCATATGC,GAATATCC	2
AT5G06865	2	-1673,-1199	GAATATTC,GTATATTC	2
AT5G01595	1	-1988	GCATATTC	2
XLOC_026999	3	-372,-139,-128	GCATATTC,GCATATTC,GAATATTC	1
XLOC_001691	3	-1391	GTATATAC	1
XLOC_013732	3	-39,-299,-150	GCATATTC,GAATATAC,GAATATTC	1
XLOC_030250	1	-69	GAATATTC	1
XLOC_025622	2	-243,-273	GTATATCC,GAATATAC	1
XLOC_004968	1	-183	GAATATGC	1
XLOC_032181	4	-427,-108,-1483,-79	GGATATCC,GGATATGC,GAATATCC,GGATATTC	2
XLOC_006489	2	-1453,-191	GCATATGC,GCATATTC	2
XLOC_010338	2	-1706,-488	GCATATCC,GTATATCC	2
XLOC_013570	1	-1796	GAATATTC	2
XLOC_005614	2	-588,-113	GCATATCC,GAATATTC	2
XLOC_013661	1	-204	GTATATTC	2
XLOC_014746	1	-62	GAATATGC	2
XLOC_015182	1	-78	GAATATCC	2

Note:
^aGene names listed in italics are Pi starvation induced protein-coding marker genes
^bFor protein-coding genes, the position is given for the most 5′-upstream nucleotide relative to the first ATG in the transcribed region. For lncRNAs, the position refers to the most 5′-upstream nucleotide relative to first nucleotide of transcripts
^cThis table only lists targeted lncRNAs in cluster 1 and 2. Full table of PHR1 targeted genes and lncRNAs are listed in Additional file 7

ISSN: 1471-2164