Development of Chloroplast Genomic Resources in Chinese Yam (Dioscorea polystachya)

Table 3

SSRs identified from in silico comparative analysis of the chloroplast genomes of six D. polystachya genotypes.

Position	Region	Location	SSR type	Forward sequence	Reverse sequence	PRODUCT1 size (bp)
matK-trnK	LSC	space	(TATAT)3	CCGAGGACAAGGAATCCAATCA	AGGTTCTCCTGAGAGTGAACCA	270
matK-trnK	LSC	space	(A)10	CCGAATTGGGCCATAAGACTCT	ACCATGACTGATCCTGAAAGGT	223
atpA-atpF	LSC	space	(A)12	TGCCATCACTTCATCAAGACCA	CCTCGGAGCCATGGAAGAAATA	253
atpH-atpI	LSC	space	(A)10	TACAGCCAATCCAGCAGCAATA	TGAGTTACTTCTCCACCCGATG	161
rps2-rpoC2	LSC	space	(A)15	ACCAAATCAATGATCGGACCAA	TAGTGCACCGTTCAAGACAAGA	255
rpoB-trnC	LSC	space	(A)11	AGACAGAATAATTGGGGGTAGGA	ACCCCATCTATGTTTAGGTTGCT	273
petN-psbM	LSC	space	(T)12	TGGACCAGTTCTTAACAGAATAATG	GGACATATGGCCGTCGAAAGAA	138
trnE-trnT	LSC	space	(T)11	CGATGTCGGATTGGTACACGTA	GCATATGCACTCATTCAAGGACA	183
trnS-psbZ	LSC	space	(TA)6	TTCAAGACCGGAGCTATCAACC	GCATGTGGTCGAGGAGAGTTTA	232
trnF-ndhJ	LSC	space	(TA)7	GCTCCCTCTTTCTCCTTTGTTC	TACCGCGCACATCACTTAGAT	280
petA-psbJ	LSC	space	(A)12	CTTGGCATCTGTGATTTTGGCA	TGTTCCTTTCATTTATCCCGTCA	221
psbE-petL	LSC	space	(A)11	CCAAGCTTTACTGTACCGAATCC	TGTGTGTGTCGTGTAGCTTGAT	215
psbE-petL	LSC	space	(A)10	ATCAAGCTACACGACACACACA	AGCAGCCAACAGAAAACCAAAA	199
clpP	LSC	intron 1	(T)10	CACCCTTCCTTTCGTTGGAGTA	ATCGGGAGTACATTTCAGCGTC	213
clpP	LSC	intron 2	(T)11	CACCTTTGGATGCATACGGTTC	TATAGTATAGGGCGGGGTCCAA	163
clpP	LSC	intron 2	(T)12	CCGGGTAAAGATCTGTCCGAAT	AGCGTGAAGTGCAATTAGATCA	276
rps11-rpl36	LSC	space	(T)12	ACCAATACGTCCATTCCTACGG	TAGGCGTGGACGAATTATGGTG	238
rps8-rpl14	LSC	space	(T)10	TCCCTACCCATGACGAACTAGA	ACTCGAGTTTTTGGTGCGATTC	259
rpl16	LSC	intron	(T)10	GCTCCTCGCGAATGAAATGATT	GCTCGCGAAACCCTTGTTTATT	275
rpl16-rps3	LSC	space	(T)12	CGAGTCACACACTAAGCATAGC	GTTCCCCTACAAACAATTCGCG	279
rps12-trnV	IR	space	(ATA)4g(TAA)6	TGGTTCTGCTTCCCCTCTTTTT	GCAAAGGGTCGAGAAACTCAAC	274
ycf1-rps15	SSC	space	(T)16	CCATTCAACTGGATCTAGGAGGA	TGTGGATTTTACCGATCGGGAA	241
rpl32-ndhF	SSC	space	(T)10	TATCTATACTTATTGCACCAATA	ACCAAGTATTAACCAGTGTTAA	176