Resources Molecular Markers CAPS CAPS Markers Chromosome 4


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
LD 4, above GA1 4.2 PvuII: Col, 3 (0.5, 0.9, 2x1.4); Ler, 2 (0.5, 1.4, 2.3) 5'-TCGATCAGCTCCAAGATGTCGTCG-3' 5'-CTCATGTACTGGCTATTCCCTTGG-3' R. Meister, unpublished
GA1a 4, position 17.72 on RI map 1.196 BsaBI: Col=CV=No-0=R=Ws, 1 (0.707, 0.527); Ler=C24, 0 (1.196) 5'-AAGCTTCGAACTCAAGGTTC-3' 5'-CCGGAGAATCGTACGGTAC-3' The Plant J. (1993) 4, 403-410. T. Altmann (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
GA1a   0.9 BsaBI: Col, 1 (0.8, 0.1); Ler, 0 (0.9) 5'-ATCTTGAGAAACCTAACGGACGGGGAAAT-3' 5'-TTGTGCATTATCTCTTTTGGTATCCTTGT-3' R. Meister, unpublished
ABP1 4, telomeric to m448a and centromeric to GA1 3 ApoI: polymorphic between Col and Ler 5'-TAAACAAACACAAAACGAGTAGATTGACC-3' 5'-CCCACGCAAGAACTCATAAACCTTAGCAC-3' R. Meister, unpublished.
SC5 4, btn mi260 and m226 0.55 AccI, Col=CV,0 (0.55); Ler, 1 (0.3, 0.25) 5'-TCGACGACTCTCAAGAACCC-3' 5'-CACAAGCTATACGATGCTCACC-3' Melanie Stammers, C.A. Blanco (CV), unpublished
MEKK1a 4, position 23.6 on RI map 0.99 AluI: Col, 7 (0.32, 0.23, 0.17, 0.10 and 4 smaller); Ler, 7 (0.32, 0.23, 0.12, 0.10 and 4 smaller) 5'-CAAGCTCCATTGAAGCCAAG-3' 5'-CACGTCTCGTCAGCCGTATC-3' G. Thorlby, E. Veale and G. Warren, unpublished
F17A8-79000 4, 160 kb north of Det1 0.61 XbaI : Ler, 0 (0.61); Col, 1 (0.2 0.41) 5'-ATATACCACTAGACACTAGACT-3' 5'-GTGTTTTGGCAAGAATTAGTTGTTGGA-3' N. Garcia, P. Berthomieu (unpublished)
Det1a 4, position 31.44 on RI map 1.1 Sac I: Col, 0 (1.1); Ler, 1 (0.6, 0.5) 5'-CAAAATGTGAATGTCC-3' 5'-GAGCATCAACAAGATGACC-3' Cell (1994) 78, 109-116
T5L19SE 4, close to Det1 - BAC T5L19 1.5 RsaI : Ler=WS, 4 (0.78 0.25 0.21 0.18 0.1); Col, 5 (0.78 0.21 0.18 0.15 0.1 0.1) 5'-CAAGATTCAAACGGTTGAGGTGGG-3' 5'-CAAGACTATCATGCTGACATGTCG-3' C. LAMBERT, P. BERTHOMIEU (unpublished)
F24G24SE 4, 110 kb south of Det1 1.55 XbaI : Ler, 1 (0.3 1.25); Col, 2 (0.3 0.45 0.8) 5'-ATGTTTCCCTGGAATCAACCGAG-3' 5'-GATCATATAGCCACCTGCAAAACC-3' N. Garcia, P. Berthomieu (unpublished)
g4539a 4, position 57.64 on RI map 0.6 HindIII: Col=CV=R, 0 (0.6); Ler=Ws, 1 (0.48, 0.12) 5'-GGTCATCCGTTCCCAGGTAAAG-3' 5'-GGACGTAGAATCTGAGAGCTC-3' Jane Parker, C.A. Blanco (CV), H. Ichikawa (RLD), unpublished.
AGa 4, position 63.16 on RI map 1.366 XbaI: Col, 0 (1.366); Ler=C24=CV=No-0=R=Ws, 1 (1.073, 0.293) 5'-CAACAGGTTTCTTCTTCTTCTC-3' 5'-CAAACACCATTTAATCTTGACA-3' The Plant J. (1993) 4, 403-410. T. Altmann (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
ch42 4, 1cM from ag 1.4 ClaI: Col=CV, 1 (0.75, 0.65); Ws, 0 (1.4) 5'-CAGTGGATCTTTCCTCAGACG-3' 5'-CATCTTCTTCTGCAATCTGGG-3' B. Dietrich, C.A. Blanco (CV), unpublished.
g3883-1.4a 4, position 64.15 on RI map Col=No-0, 1.4 (uncut); Ws, 0.7 (uncut) no cutting required 5'-CATCCATCAAACAAACTCC-3' 5'-TGTTTCAGAGTAGCCAATTC-3' B. Dietrich, unpublished.D. Wagner (No-O), unpublished.
g13838-1.4 4, 3.5 cM from g3883 and 2.5 cM from B9 1.4 HinfI: Col, 3 (0.45, 0.33, 0.28, 0.2); Ws, 3 (0.45, 0.33, 0.28, 0.16) 5'-CACGTTAGTTAGTTAGAAGG-3' 5'-CTGATGTTCTCTACAAATGG-3' B. Dietrich, unpublished.
B9-1.8 4, could probably be JGB9 at position 65.72 on RI map 1.8 HinfI: Col, 4 (0.42, 0.26, 0.24, 0.18, 0.14); Ler=Ws, 4 (0.42, 0.26, 0.18, 0.16, 0.14); RsaI: Ler=Col=WS=RLD, 2 (0.9, 0.7, 0.2); CV, 3 (0.9, 0.7, 2x 0.1) 5'-CGTATCCGCATTTCTTCACTGC-3' 5'-CATCTGCAACATCTTCCCCAG-3' B. Dietrich, unpublished.
CBF1a 4, position 74.0 on RI map 0.68 MboI: Col, 1 (0.36, 0.30); Ler, 2 (0.30, 0.22, 0.14) 5'-CCTTATCCAGTTTCTTGAAACAGAG-3' 5'-CGAATATTAGTAACTCCAAAGCGAC-3' Thorlby et al, Plant J. (1999) 17, 445-452
PG11a 4, position 75.16 on RI map 1.293 BfaI: Col=Ws, 3 (0.644, 0.296, 0.263, 0.090); Ler=C24=CV=No-0, 2 (0.644, 0.353, 0.296) 5'-CGCAACTAACCACACATTAC-3' 5'-AGTGAAATTCACCAGCATG-3' The Plant J. (1993) 4, 403-410T. Altmann (C24), C.A. Blanco (CV), D. Wagner (No-O), unpublished.
RPS2a 4, position 75.69 on RI map 0.785 Sau3A I: Col, 1 (0.18, 0.605); Ler=CV, 2 (0.18, 0.251, 0.354) 5'-CTCAGAGTCTTGGACTTGTCG-3' 5'-TTCGACGGATGGACTCTCGTG-3' J. Glazebrook and E. Rogers, unpublished.
prhaa 4, position 78.98 on RI map 1.7 DdeI: Col, 3 (0.778, 0.53, 0.348, 0.03); Ler=CV=No-0=R, 4 (0.778, 0.53, 0.3, 0.05, 0.03) 5'-GCGGAAGAAGAACTCTGTTCG-3' 5'-CTTGTTTCGCACTGCTCCACC-3' Gunar Plesch, J. Bender. C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
g8300a 4, position 81.22 on RI map 1.1 MnlI: Col, 3 (0.5, 0.25, 0.2, 0.15); Ler=CV, 2 (0.5, 0.35, 0.25) 5'-GTTGTCCCCTGTTAAAAGGAGCC-5'5'-GGCGGCACTGGTGGTGTAGG-3' J. Bender, unpublished.
g8300a 4, position 81.22 on RI map 0.7 HindIII: Col=Ws, 0 (0.7); Ler, 1 (0.5, etc.) 5'-TAAAAGCTTGGACTGGCGTGATTGACG -3' 5'-CCGAATTCCCGACGGCATTGCCAGGC-3' Arioli T. et al. (1998) The molecular analysis of cellulose biosynthesis in Arabidopsis. Science, Vol 279 p717-720.
yUP5C8RE 4, between g8300 and 06455 0.296 NlaIII: Col, 2 (0.171, 0.071, 0.054); Ler, 1 (0.225, 0.071) 5'-TAAGAGAGAAGAGTACATATC-3' 5'-AGCAGTGTAATAGAGATATTAGTAC-3' Arioli T. et al. (1998) The molecular analysis of cellulose biosynthesis in Arabidopsis. Science, Vol 279 p717-720.
CAT2a 4, position 85.75 on RI map 0.94 DdeI: Col, 4 (0.393, 0.238, 0.138, 0.124, 0.047); Ler, 3 (0.393, 0.262, 0.238, 0.047) 5'-CACAGTCATGCGACTCAAGACTTG-3' 5'-GACCAGTAAGAGATCCAGATACTGCG-3' Frugoli et al. (1996) Plant Physiol. 112, 327-336.
UM596Aa 4, position 102.69 on RI map 1.2 Sau96I: Col, 0 (1.2); Ler, 1 (0.9, 0.3) 5-CAGGACTTCGAGTGACGATCG-35-CCCAGTCGGAAATGGCCTCCG-3 E. Rogers, unpublished.
CCR1a 4, position 105.66 on RI map 0.579 HpaII: Col, 2 (0.373, 0.116, 0.090); Ler, 2 (0.373, 0.116, 0.080) 5'-AGGCTGCGTCTTATCACCTC-3' 5'-CGTCCATCGAGCTCTTTACC-3' G. Warren, unpublished
DHS1a 4, position 105.66 on RI map - BAC T5J17 0.194 no cutting required : Ler=Col, 0 (0.194); WS, 0 (0.17) 5'-GAGCTTTGTAAATCAACAACC-3' 5'-GATATTTTTCAGGCGACGTGGAAGC-3' C. LAMBERT, P. BERTHOMIEU (unpublished)
DHS1a 4, position 108.54 on RI map 1.668 DdeI: Col, 2 (1.491, 0.129, 0.048); Ler=CV=R=Ws, 1 (1.62, 0.048); BsaAI: Col, 1 (1.188, 0.48); Ler=C24=CV=No-0=R=Ws, 0 (1.668); MboII: Col=CV, 3 (1.084, 0.173, 0.141, 0.081); Ler, 5 (0.52, 0.48, 0.173, 0.141, 0.084, 0.081) 5'-CAAGTGACCTGAAGAGTATCG-3' 5'-AGAGAGAATGAGAAATGGAGG-3' The Plant J. (1993) 4, 403-410. T. Altmann (C24), C.A. Blanco (CV), H. Ichikawa (RLD), D. Wagner (No-O), unpublished.
T5L23.3 4, between T5L23.1 and T7M24.3 1088 CAPS (Msp I)C=uncut, L=2 fragments 5'-TTGGTTTTAAGGCTTTGGTGTAGG-3' 5'-ATGCGCAGAAGAGACGATGATAG-3' G. Copenhaver & D. Preuss
T27D20.4 4, between T24H24.3 and mi306 1070 CAPS (Dde I)C=4 fragments, L= 5 fragments 5'-AAACGCCGCCAAAATCAGAAC-3' 5'-ACAACCTTAGCCCCATCCATTC-3' G. Copenhaver & D. Preuss
mi306 4, between T27D20.4 and T15D16-t7 881 CAPS (Tai I)C=2 fragments, L=uncut 5'-CTGCGAGCGAGGTCAATG-3' 5'-GCAGCCGTGTGGATGGAG-3' G. Copenhaver & D. Preuss
T15D16-t7 4, between mi306 and mi87 375 CAPS (Mse I)C=uncut, L=2 fragments 5'-AATCAATTGGTTTCTACTTTTTAG-3' 5'-AACTCCGACTGAAGGTATAGC-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