Resources Molecular Markers CAPS CAPS Markers Chromosome 1


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
PVV4a 1, position 3.24 on RI map 1.064 BsaAI: Col=C24=CV=No-0=Ws=R, 2 (0 5'-GTTTGAAAGTGTAGATGTAACGAC-3' 5'-GGTTGTG The Plant J. (1993) 4, 403-410. C. Alonso Blanco (CV), T. Altmann (C24), and H. Ichikawa (RLD), unpublished.
PVV4a     HaeIII: polymorphic between Col and Le 5'-GTTTGAAAGTGTAGATGTAACGAC-3' 5'-GGTTGTG T. Altmann, (C24) unpublished
PAI1a 1, position 8.54 on RI map 1.347 DdeI: Col=CV=Ler, 2 (0.7, 0.4, 0.3); Ws, 3 (0.7, 0.35, 0.3, 0.05); SfaNI:  Col=Ler=No-O, 2 (0.65, 0.5, 0.25); Ws, 3 (0.65, 0.3, 0.25, 0.2) 5'-GGTACAATTGATCTTCACTATAG-3' 5'-GATCCTAAG Cell (1995) 83, 725-734.D. Wagner (No-O), unpublished.
PAI1a   1.347 FokI: Col, 3 (0.882, 0.368, 0.101, 0.097) 5'-GTAGAGGATTGAGCTTAAGGCAAG-3' 5'-AGCACG Li et al.(1995) Plant Cell 7:447-461
PhyAa 1, position 11.35 on RI map 1.3 HgaI: Col, 1 (1.0, 0.3); CV=Ler, 0 (1.3); 5'-GATTACTCAACCTCAGTGCG-3' 5'-CGTCATGCAAA Plant Physiol.(1994) 104, 1139-1149
NCC1a 1, position 12.60 on RI map 0.97 RsaI: Col,1 (0.87, 0.05); Ler=C24=CV= 5'-GTCCTATCTCTACGATGTGGATG-3' 5'-AAGTTATAA The Plant J. (1993) 4, 403-410. T. Altmann, (C24), C.A. Blanco (CV),H. Ichikawa (RLD), unpublished.
m59 1, 1.3 cM below g3786, 3.2 cM above g 0.78 Bsh1236I: Col=Nd, 2 (0.52, 2x0.12); Ler 5'-GAATGACATGAACACTTACACC-3' 5'-GTGCATGAT C. Hardtke and T. Berleth, unpublished
F15571a 1, position 26.29 on RI map 0.5 HpaII:  Col, 1 (0.41, 0.09); CV=Ler,  2 (0 5'-TTAACGTAGCCGATAACC-3' 5'CAACGAAAACAAA D. Hughes, unpublished
CAT3a 1, position 29.91 on RI map 0.973 HincII:  Col, 0 (0.973); Ler, 1 (0.790, 0.1 5'-CGGTGGTGCTCCAGTCTCCAAC-3' 5'-CAGATGCAA Frugoli et al. (1996) Plant Physiol. 112, 327-336.
g2395 1, 3.1 cM from pCITN7-31 0.336 XbaI: Col=CV=B=Nd=Ws, 1 (0.183, 0.1 5'-CTCCTTGTCTCCAGGTCCC-3' 5'-GGTTCCATCACCA C. Hardtke and T. Berleth, unpublished
m235a 1, position 34.01 on RI map 0.534 HindIII: Col=Nd, 1 (0.309, 0.225); Ler=B 5'-GAATCTGTTTCGCCTAACGC-3' 5'-AGTCCACAACA C. Hardtke and T. Berleth, unpublished
UFOa 1, position 49.63 on RI map 1.3 TaqI: Col=R, 1 (0.983, 0.316); Ler, 2 (0. 5'-GTGGCGGTTCAGACGGAGAGG-3' 5'-AAGGCATCA Detlef Weigel, H. Ichikawa (RLD), unpublished.
Cxc750 1, between UFO and mi423a 0.7 (Col) no cutting required. Col, 0.7 kb band; L 5'-CGCCAAAGACTACGAAATGATC-3' 5'-ATAATAGAT G. Copenhaver and D. Preuss, unpublished
7G6 1, near mi423a 0.43 AccI: Col, 2 bands; Ler 1 band 5'-GGGTCTGGTTATGCCGTGAAG-3' 5'-GTTTTACTTAG J. Bender, unpublished
mi342 between 7G6 and T22C23-t7 0.995 Hinf I: Col 2 bands, Ler 3 bands 5'-GAAGTACAGCGGCTCAAAAAGAAG-3'   5'-TTGCT G. Copenhaver & D. Preuss
AIG1a 1, position 55.62 on RI map 1.3 BstUI: Col, 1 (1.1, 0.65); Ler, 1 (1.1, 0.7 5'-GGCCAACGATCAGAAGAATAG-3' 5'-ACAAAGATT K. Butcher and G. Warren, unpublished
GAPBa 1, position 61.21 on RI map 1.481 BfaI: Col, 2 (1.211, 0.212, 0.058); Ler, 3 5'-TCTGATCAGTTGCAGCTATG-3' 5'-GGCACTATGTTC The Plant J. (1993) 4, 403-410. C.A. Blanco (CV),H. Ichikawa (RLD), unpublished.
GAPBa     DdeI: Col, 3; C24=Ler?, 4 5'-GATCACTTGCAGCTATGGC-3' 5'-CACTATGTTCAGT T. Altmann, unpublished (C24)
F11I4Sp6 1, position 70.40 on RI map 0.751 NsiI: polymorphic between Col and Ler ( 5' ggggatccCCTTGTCGCCTACACTTTAG-3' 5' gggaattc J. Brusslan, unpublished
IAR3 1, between GAPB and nga280 0.126 (Col), 0.135 (WS) no cutting required 5'-GCAACTCAAGAAAAGAATTGAGC-3' 5'-GCTCGCTT Davies, R.T., Goetz, D.H., Lasswell, J., Anderson, M.N., and Bartel, B. (1999) Plant Cell 11, 365-376.
PAI3 1, btn nga248 and nga280. 1.2 MnlI: Col=Ler, 5 (0.28, 0.26, 2x0.2, 0.12 5'-CACAGCTCTCTTTGAGGTAACTTC-3' 5'-GACCCCT Cell (1995) 83, 725-734.
NPR1 1, btn AthGENEA and m305 0.615 AluI: Col, 0 (0.615); Ler=En-2, 1 (0.536, 5'-CCGGGTGTAAAGATAGCACCTT-3' 5'-GTTGATGTA A. Callaway, unpublished.
g4026a 1, position 87.02 on RI map 0.9 RsaI: Col, 1 (0.65); Ler, 1 (0.8) 5'-GGGGTCAGTTACATTACTAGC-3' 5'-GTACGGTTCTT  Clarke et al. (1998) The Plant Cell. 10, 557-69.
g11447 1, 7.87 cM to telomeric side of g4026 0.85 EcoRV: Col=Ws, 1 (0.77, 0.08); Ler, 0 ( 5'-GTGACAGACTTGCTCCTACTG-3' 5'-CAGTGTGTAT H. Cao, unpublished
m305a 1, position 91.89 on RI map 1.6 HaeIII: polymorphic between Col=Ws an 5'-TTCTCCAGACCACATGATTAT-3' 5'-TGAAGCTAATA H. Cao, unpublished
PAB5a 1, position 113.71 on RI map 0.885 MboII: Col, 3 (0.360, 0.320, 0.165, 0.04) 5'-AGTATCATCAAAATCGAGAGATTG-3' 5'-GATGCAA PNAS (1993) 90, 6686-6690
H77224a 1, position 115.34 on RI map 0.22 TaqI: Col,  1 (0.13, 0.09); Ler, 2 (0.13, 0 5'- TTGGGGAAGAGGAAGT-3' 5'-CTTAGCCTTGCTTTG D. Hughes, unpublished
ADHa 1, position 117.52 on RI map 1.291 XbaI: Col=CV=No-0=Ws, 0 (1.291); Ler 5'-GCGTGACCATCAAGACTAAT-3' 5'-AAAAATGGCAA The Plant J. (1993) 4, 403-410. T. Altmann, (C24), C.A. Blanco (CV), H. Ichikawa (RLD), unpublished.
F18B13-5000 1, approx. 121 on RI map - BAC F18B1 1.65 RsaI : Ler=Col: 2 (0.79 0.57 0.29);  WS, 5'-GATAAGTGATTACATCACCAGTTCC-3' 5'-CCCCAC C. LAMBERT, P. BERTHOMIEU, unpublished
GL2 (ve043)a 1, position 123.81 on RI map 1.8 approx. DraI: Col,  (1.3, 0.5); Ler, (0.9, 0.5) 5'-GTAGCTCTCTCACAACTGTG-3' 5'-ATAGGAAACTG J. Nadeau, unpublished
g17311a 1, position 125.44 on RI map 1.6 approx. RsaI: Col,  (0.9, 0.7); Ler (0.9, 0.32); No 5'-TACATCGCCGTGAGTCTGTC-3' 5'- GCGAGTCCTG J. Nadeau, unpublished
mi342 1, between 7G6 and T22C23-t7 995 CAPS (Hinf I)C=2 fragments, L=3 fragm 5'-GAAGTACAGCGGCTCAAAAAGAAG-3' 5'-TTGCTG G. Copenhaver & D. Preuss
T22C23-t7 1, between mi324 and F16K23-sp6 634 CAPS (Mnl I)C=4 fragments, L=5 fragm 5'-GTTGACTTGTATTTGATTTCTTTTTC-3' 5'-CGAGTGA G. Copenhaver & D. Preuss
F5L13-sp6 1, between F16K23-sp6 and T3L4'-sp6 523 CAPS (Cac8 I)C=uncut, L=2 fragments 5'-GAAGTGCGGATCTGTTTGAAG-3' 5'-ATAAAAAGCC G. Copenhaver & D. Preuss
T3L4'-sp6 1, between F5L13-sp6 and T3P8-sp6 445 CAPS (Dde I)C=2 fragments, L=3 fragm 5'-ATTCATGAGTGCAAAGGGTAGAG-3' 5'-CTCAGCC G. Copenhaver & D. Preuss
T3P8-sp6 1, between T3L4'-sp6 and T10N9-sp6 519 CAPS (Hae III)need cut to see small ssl 5'-AAGCTTCATTCTGTGGTTTTG-3' 5'-AGAATCCTTAG 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