Primer pairs for the repeated Y' elements amplify sequences from multiple
genomic sites. These primers are also available.
Model Y' element ORF |
Upstream primer sequence |
Priming sites for upstream primer |
Priming sites for downstream primer |
Downstream primer sequence |
Comments?? |
YEL076C-A |
gcggatccaaaacactagatgccgtg |
5162 |
5147 |
chr10 |
1066887 |
1066902 |
chr12 |
1073471 |
1073486 |
chr12 |
4790 |
4775 |
chr14 |
1086433 |
1086448 |
chr15 |
4699 |
4684 |
chr16 |
1527285 |
1527300 |
chr4 |
4794 |
4779 |
chr5 |
572102 |
572117 |
chr5 |
1086168 |
1086183 |
chr7 |
5179 |
5164 |
chr9 |
|
4511 |
4526 |
chr10 |
1067458 |
1067443 |
chr12 |
1074121 |
1074106 |
chr12 |
4140 |
4155 |
chr14 |
1087083 |
1087068 |
chr15 |
4049 |
4064 |
chr16 |
1527935 |
1527920 |
chr4 |
4223 |
4238 |
chr5 |
572752 |
572737 |
chr5 |
1086818 |
1086803 |
chr7 |
4528 |
4543 |
chr9 |
|
cggtcgaccagtgtgcagttggatgc |
Annotated intron is same as that for YLR464W. Intron is predicted to
be 279 nt long starting at nt 514 of the ORF and ending at 792. Evidence
for unspliced RNA was obtained. |
|
YJL225C |
gcggatccctataccacgaagtagcgcag |
5045 |
5030 |
chr10 |
1067004 |
1067019 |
chr12 |
1073588 |
1073603 |
chr12 |
4673 |
4658 |
chr14 |
1086550 |
1086565 |
chr15 |
4582 |
4567 |
chr16 |
1527402 |
1527417 |
chr4 |
4677 |
4662 |
chr5 |
572219 |
572234 |
chr5 |
1086285 |
1086300 |
chr7 |
5062 |
5047 |
chr9 |
|
4480 |
4495 |
chr10 |
1074152 |
1074137 |
chr12 |
1067489 |
1067474 |
chr12 |
4109 |
4124 |
chr14 |
1087114 |
1087099 |
chr15 |
4018 |
4033 |
chr16 |
1527966 |
1527951 |
chr4 |
4192 |
4207 |
chr5 |
572783 |
572768 |
chr5 |
1086849 |
1086834 |
chr7 |
4497 |
4512 |
chr9 |
|
cgtagtcgacagtcgaggctccgatgaaccg |
Annotated intron is same as that for YIL177C. Intron is predicted to
be 388 nt long starting at nt 1162 of the ORF and ending at 1549. Evidence
for unspliced RNA was obtained. |
|
YNL339C |
gcggatcccaagagaatatccacgaagcg |
6549 |
6534 |
chr10 |
5221 |
5206 |
chr12 |
10756 |
10741 |
chr12 |
1065556 |
1065571 |
chr12 |
1072089 |
1072104 |
chr12 |
5097 |
5082 |
chr13 |
6177 |
6162 |
chr14 |
1085051 |
1085066 |
chr15 |
6086 |
6071 |
chr16 |
942948 |
942963 |
chr16 |
5433 |
5418 |
chr2 |
1525903 |
1525918 |
chr4 |
570756 |
570771 |
chr5 |
6108 |
6093 |
chr5 |
1084781 |
1084796 |
chr7 |
557394 |
557409 |
chr8 |
6566 |
6551 |
chr9 |
|
6170 |
6185 |
chr10 |
4848 |
4863 |
chr12 |
10383 |
10398 |
chr12 |
1065911 |
1065896 |
chr12 |
1072463 |
1072448 |
chr12 |
4724 |
4739 |
chr13 |
5798 |
5813 |
chr14 |
1085425 |
1085410 |
chr15 |
5707 |
5722 |
chr16 |
943327 |
943312 |
chr16 |
5049 |
5064 |
chr2 |
1526277 |
1526262 |
chr4 |
5753 |
5768 |
chr5 |
571111 |
571096 |
chr5 |
1085160 |
1085145 |
chr7 |
557778 |
557763 |
chr8 |
6187 |
6202 |
chr9 |
|
cgggtacctgttgattgttatgctttttg |
Annotated intron is same as that for YGR296W, YPL283C, and YPR202W.
Intron is predicted to be 148 nt long starting at nt 20 of the ORF and
ending at 167. Evidence for unspliced RNA was obtained. |
|
YPR202W |
gcggatccatggaaattgaaaacgaa |
6468 |
6453 |
chr10 |
5140 |
5125 |
chr12 |
10675 |
10660 |
chr12 |
1065637 |
1065652 |
chr12 |
1072170 |
1072185 |
chr12 |
5016 |
5001 |
chr13 |
6096 |
6081 |
chr14 |
1085132 |
1085147 |
chr15 |
6005 |
5990 |
chr16 |
943029 |
943044 |
chr16 |
5352 |
5337 |
chr2 |
1525984 |
1525999 |
chr4 |
6027 |
6012 |
chr5 |
570837 |
570852 |
chr5 |
4184 |
4169 |
chr6 |
1084862 |
1084877 |
chr7 |
4873 |
4858 |
chr8 |
557475 |
557490 |
chr8 |
6485 |
6470 |
chr9 |
|
6164 |
6179 |
chr10 |
4842 |
4857 |
chr12 |
10377 |
10392 |
chr12 |
1065917 |
1065902 |
chr12 |
1072469 |
1072454 |
chr12 |
4718 |
4733 |
chr13 |
5792 |
5807 |
chr14 |
1085431 |
1085416 |
chr15 |
5701 |
5716 |
chr16 |
943333 |
943318 |
chr16 |
5043 |
5058 |
chr2 |
1526283 |
1526268 |
chr4 |
5747 |
5762 |
chr5 |
571117 |
571102 |
chr5 |
3880 |
3895 |
chr6 |
1085166 |
1085151 |
chr7 |
4574 |
4589 |
chr8 |
557784 |
557769 |
chr8 |
6181 |
6196 |
chr9 |
|
cgggtaccatagtatgttgattgttatgc |
Annotated intron is same as that for YGR296W, YPL283C, and YNL339C.
Intron is predicted to be 148 nt long starting at nt 20 of the ORF and
ending at 167. Evidence for unspliced RNA was obtained. This primer pair
has a 3' primer that overlaps the YNL339C 3' primer, but has a 5' primer
about 80 bp closer. |
|