Genome-wide association studies of yield-related traits in high-latitude japonica rice

BMC Genomic Data

Table 4 Candidate genes identified from 22 detected SNPs for 4 traits

SNP	Chr^a	Gene ID^b	Annotation	Distance (kb)^c
S1_29521211	1	LOC_Os01g51330	3 prime UTR variant	0.0
S2_9226198	2	LOC_Os02g16230	intergenic region	2.3
S2_13626408	2	LOC_Os02g22820	intergenic region	18.9
S2_34946356	2	LOC_Os02g57080	intron variant	0.0
S3_13365688	3	LOC_Os03g23110	intron variant	0.0
S4_7050530	4	LOC_Os04g12744	intergenic region	2.5
S4_16690715	4	LOC_Os04g28234	3 prime UTR variant	0.0
S4_22584137	4	LOC_Os04g37960	intron variant	0.0
S4_32507995	4	LOC_Os04g54690	intergenic region	0.0^d
S5_11687290	5	LOC_Os05g19990	synonymous variant	0.0
S5_2003327	5	LOC_Os05g04370	intergenic region	0.5
S6_8044409	6	LOC_Os06g14406	intron variant	0.0
S7_8832791	7	LOC_Os07g15330	intron variant	0.0
S7_29566846	7	LOC_Os07g49370	intron variant	0.0
S7_29238189	7	LOC_Os07g48870	intergenic region	3.9
S7_3214984	7	LOC_Os07g06610	intergenic region	0.9
S7_9482292	7	LOC_Os07g16240	intergenic region	3.4
S8_22791456	8	LOC_Os08g36160	intergenic region	2.5
S9_8477108	9	LOC_Os09g14350	intron variant	0.0
S11_8842451	11	LOC_Os11g15590	intron variant	0.0
S11_26127237	11	LOC_Os11g43300	intergenic region	3.3
S11_5366552	11	LOC_Os11g10010	intergenic region	0.9

^aChromosome
^bGene ID from MSU genome annotation database (version 7.0)
^cThe distance between SNPs and the nearest gene. The 0 kb means that the SNP located inside the gene
^dThe distance between the SNP S4_32507995 and the gene LOC_Os04g54690 is 28 bp

ISSN: 2730-6844