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Chromosome 12

ChrPosition in a YAC physical map (genetic distance, cM)Marker name 1)Type of marker 2)Enzyme 3)Amplified band size (bp) in Nipponbare5' primer sequence3' primer sequenceMapping populationPosition 4)Comment
127.9C732BCAPSMspI,HapII6005' AAG AAG ATG GAG CGG CTG AG 3'5' TCA AGG CAT CGG AAA AGC AG 3'F2C732B
1212.3C62896STS
1945' GAG AAA TCA AAT CGG GCC AC 3'5' AAG GGC AAG ATG CAT TCG AC 3'BILR642
1230R2672CAPSHindIII,BamHI,HaeIII,XbaI,MspI,HapII,ScaI,MboI,HincII38005' GCC AGG CGA CGA TCA AT 3'5' CGA TAG CAC GCA ATG ACA 3'F2R2672
1240.3R2621CAPSHhaI
5' GAT TAT GAG TAC AGG GCA GT 3'5' CAA CAT TCA ATT CTG CTT AC 3'F2R2621
1242.7-47.0C60772STS
1895' CTG TAT GTG TGA GCC ACG AG 3'5' TCT CCC AAT TGG CAA CTA GG 3'BILR3375
1247.2RZ869STS
2325' TAT CAA TCA CCC CCA ACC TC 3'5' TTT TGG TAT TTG CTG CAT GG 3'BILR3375/C443
1249.3S10704CAPSMspI,HinfI6505' CCT CCG TGA TGG CGT C 3'5' ACG ATA ACA AAC TGG GAA CA 3'F2S10704
1251.5R887STS
12005' TCA GTT GCG ACC TTG CT 3'5' ACG CTT TGG TCC AGG AT 3'F2R887dominant
1251.8S14025CAPSEcoRI,PshBI,MboI23005' AGA GAG AGA GAT GGC AGC AA 3'5' CGC GTG TAT CCA ACT ATC CA 3'F2S14025
1257.8S1436CAPSHindIII,HaeIII,SacI6005' CTT GCT ATG ATG GAG AGG GT 3'5' AAA TGC TTG CTG AGG TTA CA 3'F2S1436
1271.7C1060STS
7005' TTC CGT CGA TTC AGG TAG AG 3'5' TCA AGC ACC AAA CCC ATC AC 3'F2C1060dominant
1289.5-91.9S15552STS
2455' TGC TCA CTG CCT TAG CTT TG 3'5' TAC GTA TGC ACG TCA CAT CC 3'BILC1069/R1709
1289.5-91.9S20103STS
2195' GTT CGA GGG TAA CCC GAA GG 3'5' TCA TCG CCT CGA TCA CAC AC 3'BILC1069/R1709
1291.4R1709STS
20005' ATG TGC GTG CTT TGT TTG 3'5' GAC TGC TCA TTC CCA ACT T 3'F2R1709dominant
12
R1709STS
2425' GAT CAG TCA GCC AGC TCA GG 3'5' TCA TTC CCA ACT TGC GTG TG 3'BILR1709
1297.3-99.7E11861STS
1835' ACA CAT AGC CCC CAA TTA GG 3'5' TGG TGT ACT GGT TTG CAA TG 3'BILC1069/G1406
12103.6L714STS
2075' TCA CCA TCT GTT GCA GTA GC 3'5' CTT CCT AGA GTT GGC AAC AC 3'BILG1406
12108.2-109.2E60843STS
2145' ACA ACA AGC GTC ACC TGG TC 3'5' CTT CAG TCG ATG AGA ATG CC 3'BILC901
12109.5C901STS
1205' CAT ATT TCA CCG TTT TGT CG 3'5' GTG GCG TGC TCC TAA AAC TT 3'F2C901
1210.3C1116ANP
15005' GAG CCA TTT GAT TGA TCC AG 3'5' TGG CAC CTA CTA TAC AAG CA 3'


1212.2R642BNP
20005' AGT CAG AGG GTT ATC GCA T 3'5' TAA AAG CCT CCA GCA ACA 3'


1226C1336NP
15005' AGA CTT CGT TGA CAG ACA TT 3'5' GCA AAC TGA AAC AAG ATT AT 3'


1227.1R1534NP
15005' CAT GCC ACC TCA CCT CCT TT 3'5' AGC TTG CCG AAG AAC CTC TG 3'


1247R617NP
4505' TGA CTA CTA CAC CAA GAA GG 3'5' AGA CTG TGA AGC GAA AAC TG 3'


1255.9S13752NP
6505' TGG TGA CTT CGG GTT AGC AA 3'5' AGA TGT GTG CCT ATC AGC AA 3'


1273C449NP
5505' TGC CTG GTG TAT TTG TAG AG 3'5' ACA GCA CAT CAA GTA TTC CT 3'


1288.6C2808NP
3005' GGA ACT GCT GGC CTA AGG TG 3'5' GAC CAC GAA AAC TGC GAA CA 3'


1295.4S11447NP
7005' CAG GAG AAA GCA ACC GAA GA 3'5' TTC CGC GCA TTA CAT ACT CA 3'


1297.3C1069NP
14005' CAT TGG GCT TGA CAG AAC C 3'5' ATT ACT TTT CAC TCA ACA CCA G 3'


1) Polymorphism between Nipponbare and Kasalath were revealed by STS, CAPS, or dCAPS. NP indicates that no polymorphism was detected between Nipponbare and Kasalath.
2) Restriction enzymes used for CAPS and dCAPS to detect polymorphism between Nipponbare and Kasalath. No digestion is needed for STS markers.
3) Gel electrophoresis images of each marker can be linked at the "marker mane" column.
4) Chromosomal location of each marker is shown by either the RFLP marker co-segregated or the interval of flanking RFLP markers on the previously reported linkage map (Harushima et al. 1998, Lin et al.1998).
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