Resources Molecular Markers CAPS CAPS Markers Chromosome 2


Chromosome 1- Chromosome 2 - Chromosome 3 - Chromosome 4 - Chromosome 5 - Physically mapped CAPS markers

Marker Chromosome #, map position Fragment size (kb) Enzymes: ecotypesb, # cuts (size of products in kb) Primers Reference or Source
RGAa 2, position 1.75 on RI map 0.263 RsaI: Col, 1 (0.143, 0.120); Ler, 0 (0.263)  5'-GTTTAAGCAAGCGAGTATGC-3' 5'-TTCGATTCAGTTCGGTTTAG-3' Silverstone et al. (1998). The Plant Cell 10, 155-169.
m246a 2, position 11.03 on RI map 1.354 MaeIII: Col, 0 (1.354); Ler=C24=CV=No-O=R=Ws, 1 (1.122, 0.232) 5'-TGAAGAGCTATCCGAGATGG-3' 5'-GCTTGAACTCCTCCTCCTTC-3' The Plant J. (1993) 4, 403-410. T. Altmann (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
RNS1a 2, position 14.59 on RI map 1.1 AvaI: Col=Ws, 0 (1.07); Ler, 1 (0.54, 0.53) 5'-ATCTTATAACCCTCAAAATCAC-3' 5'-GACCAAACCAATCTCCATGAAC-3' R. Meister, unpublished
mi310a 2, position 18.60 on RI map 1.7 (Col) No cutting required. Col, 1.7 kb band; Ler, no product 5'-ACTTCATCACTTGCGGGACTG-3' 5'-GGCCCAAGAAGCCCACAACAC-3' G. Copenhaver and D. Preuss, unpublished
THY1 2, between g4133 and m216 0.81 RsaI: Col, 2 bands; Ler=Ws, 3 bands 5'-GGCGACCTTGGACCTGTATACG-3' 5'-AACCGCCATTTTCATTTCTATC-3' G. Copenhaver and D. Preuss, unpublished
PhyB/hy3a 2, position 34.45 on RI map 1.1 XhoI: Col, 0 (1.1); Ler=CV=Ws, 1 (0.7, 0.4) 5'-ATAAACCATTAGCCCACGTG-3' 5'-CAATCCTATGAAGAATGGCG-3' Plant Cell (1993) 5, 147-157. C.A. Blanco (CV), unpublished.
T20K242 2, on YAC clone CIC6E8 1.5 NlaIII: Col, 7 (0.37, 0.279, 0.249, 0.177, 0.176, 0.146, 0.066, 0.06); Ler, 6 (0.425, 0.37, 0.249, 0.177, 0.176, 0.066, 0.06) 5' AAGAGGCCAGATAGATCCAGC 3' 5' CTTCTAGATAACCCGAAGTCC 3' T. Sakai and G. Wasteneys, unpublished
T20D161 2,  on YAC clone CIC6C7 1.7 PstI: Col, 1 (1.4, 0.3); Ler, 0 (1.7) 5'  ATGGTTTACACTTGACAGAGC 3' 5' CGTATTTGCTGATTCATGAGC 3' T. Sakai and G. Wasteneys, unpublished
T20D163 2, on YAC clone CIC6C7 1.5 PstI: Col, 0 (1.5); Ler, 1 (1.2, 0.3) 5' GTCATTGACGGTGCTTTGAGG 3' 5' CCGAGAAGATCTACAAGAGGC 3' T. Sakai and G. Wasteneys, unpublished
GPA1a 2, position 48.90 on RI map 1.594 AflIII: Col=C24=CV=Ws, 2 (0.705, 0.680, 0.209); Ler=No-O?=R, 1 (1.385, 0.209) 5'-GGGATTTGATGAAGGAGAAC-3' 5'-ATTCCTTGGTCTCCATCATC-3' The Plant J. (1993) 4, 403-410. T. Altmann, (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
GPA1a     BstNI: polymorphic between Col, Ler=C24=WS 5'-GGGATTTGATGAAGGAGAAC-3' 5'-ATTCCTTGGTCTCCATCATC-3' T. Altmann, unpublished (C24)
GPA1a   1.14 BstNI: Col, 0 (1.14); C24 (1.02) 5'-GGTGGTAGGTTAGACTATCC-3' 5'-ATTCCTTGGTCTCCATCATC-3' D. Somers, unpublished
era 2, position 50.64 on RI map 0.5 DdeI: Col, 0 (0.5); Ler, 1 (0.36, 0.14) 5'-CTAATGTAGTGATCTGCGAGGTAATC-3' 5'-GAGTTTATTCTGTGCCAAGTCCCTG-3' N. Mochizuki, unpublished
ADS2a 2, position 62.10 on RI map 1.6 Taq1: Col, 4 (0.87, 0.27, 0.23, 0.12, 0.07); Ler, 4 (0.87, 0.28, 0.23, 0.12, 0.07) 5'-CATCAACGGTGGAGGAGAAC-3' 5'-CACCAAAACACATCGGAAAC-3' Thorlby et al, Plant J. (1999) 17, 445-452.
cop1a 2, position 63.34 on RI map 0.9 MseI: Col, 3 (0.4, 0.29, 0.12, 0.075); Ler, 3 (0.38, 0.325, 0.12, 0.075) 5'-CCACTCAGCGCATCCTTC-3' 5'-GCTCGGCATGTGTCAAAA-3' R. Buell, unpublished
m323a 2, position 67.97 on RI map 1.6 MboI: polymorph. between Col=Nd and Ler; HpaII: polymorph. between Col=Ler and Nd; HinfI: polymorphic between Col and Ler; NOTE: Mg++ conc. 1.5 mM 5'-CGGTTGAAGAAGCCTGAAGT-3' 5'-GCTTTGCTTGGCTTGAACAG-3' P. Nagpal, unpublished
ve017a 2, position 69.14 on RI map 0.357 PstI: Col, 1 (0.214, 0.143); Ler, 0 (0.357) 5'-CTTGAAGCTTAAATCTCAGC-3' 5'-GAGCAATCCAGTAGAGGATA-3' O. Vugrek, unpublished
TEn5 2, position approx. 69.7 1.559 DdeI: Col, 5 (0.742, 0.293, 0.22, 0.207, 0.066, 0.031); Ler, 6 (0.742, 0.293, 0.207, ca. 0.13, ca. 0.09, 0.066, 0.031) 5'-GAGATATTGATTGGTGTGAC-3' 5'-CGAAGTTCTTGAGCAACTAA-3' O. Vugrek, unpublished
TAMU7D17 2, between mi277 and m336 2.0 BglI: Col, 0 (2.0); Ler, 1 (1.72, 0.28) 5'-GAGGACATCTTTATCAAACC-3' 5'-GCCATAAGGAACTTTTTGTC-3' J. Nardone, unpublished
TAMU8M12 2, between mi277 and m336 1.0 FokI: Col, 1 (0.9, 0.15); Ler, 2 (0.57, 0.28, 0.15); Sau3AI: Col, 3 (0.23, 0.22, 0.17, 0.15); Ler, 2 (0.34, 0.23, 0.22) 5' GCTTCTTCTCTTTTCCTATC-3' 5'-CTCGTGCTCCTGGATTAAAG-3' J. Nardone, unpublished
m429a 2, position 73.19 on RI map 0.316 ScrFI: Col=No-O, 0 (0.316); Ler=C24=CV=R=Ws, 1 (0.216, 0.100) 5'-TGGTAACATGTTGGCTCTATAATTG-3' 5'-GGCAGTTATTATGAATGTCTGCATG-3' The Plant J. (1993) 4, 403-410. T. Altmann (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
T28M21 2, 1.7 cM south of m429 3 DraI: Col, (2.5, 0.5); Ler, (3.0) 5'-TCGTCTCGCCGTTCCTCTTC -3' 5'-AGTCATCCAAGGCAACAAAG- 3' Jason W. Reed, unpublished
T2P4-1 2, 2.3 cM south of m249 4 BspHI: Col,  (3.7, 0.3); Ler, (2.5, 1.2, 0.3) 5'-TCAGCATCAGGAGCCACAAG 3' 5'-ACCAAAGAATCATCCGAGAG-3' Jason W. Reed, unpublished
T2P4-2 2, 2.3 cM south of m249 2.5 ScrfI: Col, (2.5); Ler, (1.5, 1.0) 5'-ACTCTCTTGTCCACTCATCC-3' 5'-CTCCTTGTTGTCTTCTGTTG-3' Jason W. Reed, unpublished
T2P4-3 2, 2.3 cM south of m249 3.1 BclI: Col,  (1.3, 1.1, 0.7); Ler, (2.0, 1.1) 5'-TTTTTCTTTGCCGTGTGA GC-3' 5'-ATACTTCCATCGCCAACAAC-3' Jason W. Reed, unpublished
T6D20a 2, 4.1 cM north of CD297 3.5 MseI: Col, (0.5, 0.45, 0.2); Ler, (0.5, 0.3, 0.2) 5'-TGGATGGAGAAACAAACAGG -3' 5'-CGATGAGAGCCACCGATT AC-3' Jason W. Reed, unpublished
 CD2131a 2, 4.0 cM north of CD297 3.1 DdeI: Col, (2.7, 0.4); Ler, (1.5, 1.2, 0.4)  5'-GATCCAGATCCATAGTTC CG-3' 5'-ATTCGAATCGGCACGAAACG-3' Jason W. Reed, unpublished
CD297a 2, 7.2 cM south of m429 2.8 TaqI: Col, (1.1, 0.95, 0.75); Ler (1.9, 0.9) 5' CTC TTG GGA GAA GGC ATA GG 3' 5'TGG AGA AAT GGG TGT GAA GG 3' Jason W. Reed, unpublished
g4514a 2, position 73.77 on RI map 6.0 PstI 5'-CTGCTTTTTTGTGAGGTTTTG-3' 5'-CTCCACTCGCTAAACATCTG-3' Anonymous, unpublished
ML 2, between m336 and GBF3 0.8 SnaBI: Col, 1 (2x 0.4); Ler, 0 (0.8) 5'-CGAGAACAAAATGTGTACGGTGTG-3' 5'-CGGAAACACGAAGCTGATGAGTTGGG-3' S. Sawa and K. Okada,  unpublished
GBF3 2, telomeric to m336 1.2 HindIII: Col (1.1); Ler (1.0) 5'-CTCATTTCATTCTGTTTCTCCGTCAAGTG-3' 5'-AGCGAAGAAAATCACCCAAAGACAGACTC-3' R. Meister, unpublished
40E1T7 2, south of g4514 2.65 RsaI: Col, 4 (1.0, 0.56, 0.5, 0.4, 0.2); Ler, 4 (1.0, 0.64, 0.5, 0.4, 0.2) 5'-GCAAGCGATAGAACATAACG-3' 5'-GGTCCACTTTGATTCAAGAT-3' J. Nardone, unpublished
90J19T7 2, south of g4514 2.0 MspI: Col, 1 (1.8, 0.2); Ler, 1 (1.5, 0.2) 5'-ACAATCTTCTCCAAATCATC-3' 5'-CACGTTGACGGAAATCTTTG-3' J. Nardone, unpublished
F5J15-sp6 2, between mi310 and T22D4-t7 449 CAPS (Fnu4H I)C=2 fragments, L=3 fragments 5'-ACCGCAAGTGTGGCTGTTC-3' 5'-CTATTCTAGAAGATTGTTAGGAGTTAC-3' G. Copenhaver & D. Preuss
T22D4-t7 2, between F5J15-sp6 and F9A16-t7 712 CAPS (Hinf I)C=uncut, L=2 fragments 5'-GGCCGCGTAAGAGGAGAC-3' 5'-AAACTGATATTGTAGATGTGTATTCG-3' G. Copenhaver & D. Preuss
mi421b 2, between F9A16-t7 and F8P2-t7 609 CAPS (Hae III)C=3 fragments, L=2 fragments 5'-TAACGTTCCCACATGAGC-3' 5'-AACTCTGTACCTGCTGGA-3' G. Copenhaver & D. Preuss
aMarker mapped on RI lines (Lister and Dean, 1993).
bEcotypes: Col= Columbia, B=Bensheim, CV=Cvi, Ler=Landsberg erecta, Nd=Niederzenz, No-0=Nossen, R=RLD, Ws=Wassilenskija

Chromosome 1- Chromosome 2 - Chromosome 3 - Chromosome 4 - Chromosome 5 - Physically mapped CAPS markers