Primer3 Output


PRIMER PICKING RESULTS FOR gi|169790829|ref|NM_001754.4| Homo sapiens runt-related transcription factor 1 (RUNX1), transcript variant 1, mRNA

No mispriming library specified
Using 1-based sequence positions
OLIGO            start  len      tm     gc%   any    3' seq 
LEFT PRIMER       4412   20   60.01   55.00  2.00  0.00 CATTTCCCTCCCTCTCTTCC
RIGHT PRIMER      4653   20   59.99   50.00  3.00  2.00 TGGCAATGTCTCTGTTCTGC
SEQUENCE SIZE: 5967
INCLUDED REGION SIZE: 5967

PRODUCT SIZE: 242, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 0.00

    1 CTTTGGGCCTCATAAACAACCACAGAACCACAAGTTGGGTAGCCTGGCAGTGTCAGAAGT
                                                                  

   61 CTGAACCCAGCATAGTGGTCAGCAGGCAGGACGAATCACACTGAATGCAAACCACAGGGT
                                                                  

  121 TTCGCAGCGTGGTAAAAGAAATCATTGAGTCCCCCGCCTTCAGAAGAGGGTGCATTTTCA
                                                                  

  181 GGAGGAAGCGATGGCTTCAGACAGCATATTTGAGTCATTTCCTTCGTACCCACAGTGCTT
                                                                  

  241 CATGAGAGAATGCATACTTGGAATGAATCCTTCTAGAGACGTCCACGATGCCAGCACGAG
                                                                  

  301 CCGCCGCTTCACGCCGCCTTCCACCGCGCTGAGCCCAGGCAAGATGAGCGAGGCGTTGCC
                                                                  

  361 GCTGGGCGCCCCGGACGCCGGCGCTGCCCTGGCCGGCAAGCTGAGGAGCGGCGACCGCAG
                                                                  

  421 CATGGTGGAGGTGCTGGCCGACCACCCGGGCGAGCTGGTGCGCACCGACAGCCCCAACTT
                                                                  

  481 CCTCTGCTCCGTGCTGCCTACGCACTGGCGCTGCAACAAGACCCTGCCCATCGCTTTCAA
                                                                  

  541 GGTGGTGGCCCTAGGGGATGTTCCAGATGGCACTCTGGTCACTGTGATGGCTGGCAATGA
                                                                  

  601 TGAAAACTACTCGGCTGAGCTGAGAAATGCTACCGCAGCCATGAAGAACCAGGTTGCAAG
                                                                  

  661 ATTTAATGACCTCAGGTTTGTCGGTCGAAGTGGAAGAGGGAAAAGCTTCACTCTGACCAT
                                                                  

  721 CACTGTCTTCACAAACCCACCGCAAGTCGCCACCTACCACAGAGCCATCAAAATCACAGT
                                                                  

  781 GGATGGGCCCCGAGAACCTCGAAGACATCGGCAGAAACTAGATGATCAGACCAAGCCCGG
                                                                  

  841 GAGCTTGTCCTTTTCCGAGCGGCTCAGTGAACTGGAGCAGCTGCGGCGCACAGCCATGAG
                                                                  

  901 GGTCAGCCCACACCACCCAGCCCCCACGCCCAACCCTCGTGCCTCCCTGAACCACTCCAC
                                                                  

  961 TGCCTTTAACCCTCAGCCTCAGAGTCAGATGCAGGATACAAGGCAGATCCAACCATCCCC
                                                                  

 1021 ACCGTGGTCCTACGATCAGTCCTACCAATACCTGGGATCCATTGCCTCTCCTTCTGTGCA
                                                                  

 1081 CCCAGCAACGCCCATTTCACCTGGACGTGCCAGCGGCATGACAACCCTCTCTGCAGAACT
                                                                  

 1141 TTCCAGTCGACTCTCAACGGCACCCGACCTGACAGCGTTCAGCGACCCGCGCCAGTTCCC
                                                                  

 1201 CGCGCTGCCCTCCATCTCCGACCCCCGCATGCACTATCCAGGCGCCTTCACCTACTCCCC
                                                                  

 1261 GACGCCGGTCACCTCGGGCATCGGCATCGGCATGTCGGCCATGGGCTCGGCCACGCGCTA
                                                                  

 1321 CCACACCTACCTGCCGCCGCCCTACCCCGGCTCGTCGCAAGCGCAGGGAGGCCCGTTCCA
                                                                  

 1381 AGCCAGCTCGCCCTCCTACCACCTGTACTACGGCGCCTCGGCCGGCTCCTACCAGTTCTC
                                                                  

 1441 CATGGTGGGCGGCGAGCGCTCGCCGCCGCGCATCCTGCCGCCCTGCACCAACGCCTCCAC
                                                                  

 1501 CGGCTCCGCGCTGCTCAACCCCAGCCTCCCGAACCAGAGCGACGTGGTGGAGGCCGAGGG
                                                                  

 1561 CAGCCACAGCAACTCCCCCACCAACATGGCGCCCTCCGCGCGCCTGGAGGAGGCCGTGTG
                                                                  

 1621 GAGGCCCTACTGAGGCGCCAGGCCTGGCCCGGCTGGGCCCCGCGGGCCGCCGCCTTCGCC
                                                                  

 1681 TCCGGGCGCGCGGGCCTCCTGTTCGCGACAAGCCCGCCGGGATCCCGGGCCCTGGGCCCG
                                                                  

 1741 GCCACCGTCCTGGGGCCGAGGGCGCCCGACGGCCAGGATCTCGCTGTAGGTCAGGCCCGC
                                                                  

 1801 GCAGCCTCCTGCGCCCAGAAGCCCACGCCGCCGCCGTCTGCTGGCGCCCCGGCCCTCGCG
                                                                  

 1861 GAGGTGTCCGAGGCGACGCACCTCGAGGGTGTCCGCCGGCCCCAGCACCCAGGGGACGCG
                                                                  

 1921 CTGGAAAGCAAACAGGAAGATTCCCGGAGGGAAACTGTGAATGCTTCTGATTTAGCAATG
                                                                  

 1981 CTGTGAATAAAAAGAAAGATTTTATACCCTTGACTTAACTTTTTAACCAAGTTGTTTATT
                                                                  

 2041 CCAAAGAGTGTGGAATTTTGGTTGGGGTGGGGGGAGAGGAGGGATGCAACTCGCCCTGTT
                                                                  

 2101 TGGCATCTAATTCTTATTTTTAATTTTTCCGCACCTTATCAATTGCAAAATGCGTATTTG
                                                                  

 2161 CATTTGGGTGGTTTTTATTTTTATATACGTTTATATAAATATATATAAATTGAGCTTGCT
                                                                  

 2221 TCTTTCTTGCTTTGACCATGGAAAGAAATATGATTCCCTTTTCTTTAAGTTTTATTTAAC
                                                                  

 2281 TTTTCTTTTGGACTTTTGGGTAGTTGTTTTTTTTTGTTTTGTTTTGTTTTTTTGAGAAAC
                                                                  

 2341 AGCTACAGCTTTGGGTCATTTTTAACTACTGTATTCCCACAAGGAATCCCCAGATATTTA
                                                                  

 2401 TGTATCTTGATGTTCAGACATTTATGTGTTGATAATTTTTTAATTATTTAAATGTACTTA
                                                                  

 2461 TATTAAGAAAAATATCAAGTACTACATTTTCTTTTGTTCTTGATAGTAGCCAAAGTTAAA
                                                                  

 2521 TGTATCACATTGAAGAAGGCTAGAAAAAAAGAATGAGTAATGTGATCGCTTGGTTATCCA
                                                                  

 2581 GAAGTATTGTTTACATTAAACTCCCTTTCATGTTAATCAAACAAGTGAGTAGCTCACGCA
                                                                  

 2641 GCAACGTTTTTAATAGGATTTTTAGACACTGAGGGTCACTCCAAGGATCAGAAGTATGGA
                                                                  

 2701 ATTTTCTGCCAGGCTCAACAAGGGTCTCATATCTAACTTCCTCCTTAAAACAGAGAAGGT
                                                                  

 2761 CAATCTAGTTCCAGAGGGTTGAGGCAGGTGCCAATAATTACATCTTTGGAGAGGATTTGA
                                                                  

 2821 TTTCTGCCCAGGGATTTGCTCACCCCAAGGTCATCTGATAATTTCACAGATGCTGTGTAA
                                                                  

 2881 CAGAACACAGCCAAAGTAAACTGTGTAGGGGAGCCACATTTACATAGGAACCAAATCAAT
                                                                  

 2941 GAATTTAGGGGTTACGATTATAGCAATTTAAGGGCCCACCAGAAGCAGGCCTCGAGGAGT
                                                                  

 3001 CAATTTGCCTCTGTGTGCCTCAGTGGAGACAAGTGGGAAAACATGGTCCCACCTGTGCGA
                                                                  

 3061 GACCCCCTGTCCTGTGCTGCTCACTCAACAACATCTTTGTGTTGCTTTCACCAGGCTGAG
                                                                  

 3121 ACCCTACCCTATGGGGTATATGGGCTTTTACCTGTGCACCAGTGTGACAGGAAAGATTCA
                                                                  

 3181 TGTCACTACTGTCCGTGGCTACAATTCAAAGGTATCCAATGTCGCTGTAAATTTTATGGC
                                                                  

 3241 ACTATTTTTATTGGAGGATTTGGTCAGAATGCAGTTGTTGTACAACTCATAAATACTAAC
                                                                  

 3301 TGCTGATTTTGACACATGTGTGCTCCAAATGATCTGGTGGTTATTTAACGTACCTCTTAA
                                                                  

 3361 AATTCGTTGAAACGATTTCAGGTCAACTCTGAAGAGTATTTGAAAGCAGGACTTCAGAAC
                                                                  

 3421 AGTGTTTGATTTTTATTTTATAAATTTAAGCATTCAAATTAGGCAAATCTTTGGCTGCAG
                                                                  

 3481 GCAGCAAAAACAGCTGGACTTATTTAAAACAACTTGTTTTTGAGTTTTCTTATATATATA
                                                                  

 3541 TTGATTATTTGTTTTACACACATGCAGTAGCACTTTGGTAAGAGTTAAAGAGTAAAGCAG
                                                                  

 3601 CTTATGTTGTCAGGTCGTTCTTATCTAGAGAAGAGCTATAGCAGATCTCGGACAAACTCA
                                                                  

 3661 GAATATATTCACTTTCATTTTTGACAGGATTCCCTCCACAACTCAGTTTCATATATTATT
                                                                  

 3721 CCGTATTACATTTTTGCAGCTAAATTACCATAAAATGTCAGCAAATGTAAAAATTTAATT
                                                                  

 3781 TCTGAAAAGCACCATTAGCCCATTTCCCCCAAATTAAACGTAAATGTTTTTTTTCAGCAC
                                                                  

 3841 ATGTTACCATGTCTGACCTGCAAAAATGCTGGAGAAAAATGAAGGAAAAAATTATGTTTT
                                                                  

 3901 TCAGTTTAATTCTGTTAACTGAAGATATTCCAACTCAAAACCAGCCTCATGCTCTGATTA
                                                                  

 3961 GATAATCTTTTACATTGAACCTTTACTCTCAAAGCCATGTGTGGAGGGGGCTTGTCACTA
                                                                  

 4021 TTGTAGGCTCACTGGATTGGTCATTTAGAGTTTCACAGACTCTTACCAGCATATATAGTA
                                                                  

 4081 TTTAATTGTTTCAAAAAAAATCAAACTGTAGTTGTTTTGGCGATAGGTCTCACGCAACAC
                                                                  

 4141 ATTTTTGTATGTGTGTGTGTGTGCGTGTGTGTGTGTGTGTGTGAAAAATTGCATTCATTG
                                                                  

 4201 ACTTCAGGTAGATTAAGGTATCTTTTTATTCATTGCCCTCAGGAAAGTTAAGGTATCAAT
                                                                  

 4261 GAGACCCTTAAGCCAATCATGTAATAACTGCATGTGTCTGGTCCAGGAGAAGTATTGAAT
                                                                  

 4321 AAGCCATTTCTACTGCTTACTCATGTCCCTATTTATGATTTCAACATGGATACATATTTC
                                                                  

 4381 AGTTCTTTCTTTTTCTCACTATCTGAAAATACATTTCCCTCCCTCTCTTCCCCCCAATAT
                                     >>>>>>>>>>>>>>>>>>>>         

 4441 CTCCCTTTTTTTCTCTCTTCCTCTATCTTCCAAACCCCACTTTCTCCCTCCTCCTTTTCC
                                                                  

 4501 TGTGTTCTCTTAAGCAGATAGCACATACCCCCACCCAGTACCAAATTTCAGAACACAAGA
                                                                  

 4561 AGGTCCAGTTCTTCCCCCTTCACATAAAGGAACATGGTTTGTCAGCCTTTCTCCTGTTTA
                                                                  

 4621 TGGGTTTCTTCCAGCAGAACAGAGACATTGCCAACCATATTGGATCTGCTTGCTGTCCAA
                   <<<<<<<<<<<<<<<<<<<<                           

 4681 ACCAGCAAACTTTCCTGGGCAAATCACAATCAGTGAGTAAATAGACAGCCTTTCTGCTGC
                                                                  

 4741 CTTGGGTTTCTGTGCAGATAAACAGAAATGCTCTGATTAGAAAGGAAATGAATGGTTCCA
                                                                  

 4801 CTCAAATGTCCTGCAATTTAGGATTGCAGATTTCTGCCTTGAAATACCTGTTTCTTTGGG
                                                                  

 4861 ACATTCCGTCCTGATGATTTTTATTTTTGTTGGTTTTTATTTTTGGGGGGAATGACATGT
                                                                  

 4921 TTGGGTCTTTTATACATGAAAATTTGTTTGACAATAATCTCACAAAACATATTTTACATC
                                                                  

 4981 TGAACAAAATGCCTTTTTGTTTACCGTAGCGTATACATTTGTTTTGGGATTTTTGTGTGT
                                                                  

 5041 TTGTTGGGAATTTTGTTTTTAGCCAGGTCAGTATTGATGAGGCTGATCATTTGGCTCTTT
                                                                  

 5101 TTTTCCTTCCAGAAGAGTTGCATCAACAAAGTTAATTGTATTTATGTATGTAAATAGATT
                                                                  

 5161 TTAAGCTTCATTATAAAATATTGTTAATGCCTATAACTTTTTTTCAATTTTTTTGTGTGT
                                                                  

 5221 GTTTCTAAGGACTTTTTCTTAGGTTTGCTAAATACTGTAGGGAAAAAAATGCTTCTTTCT
                                                                  

 5281 ACTTTGTTTATTTTAGACTTTAAAATGAGCTACTTCTTATTCACTTTTGTAAACAGCTAA
                                                                  

 5341 TAGCATGGTTCCAATTTTTTTTAAGTTCACTTTTTTTGTTCTAGGGGAAATGAATGTGCA
                                                                  

 5401 AAAAAAGAAAAAGAACTGTTGGTTATTTGTGTTATTCTGGATGTATAAAAATCAATGGAA
                                                                  

 5461 AAAAATAAACTTTCAAATTGAAATGACGGTATAACACATCTACTGAAAAAGCAACGGGAA
                                                                  

 5521 ATGTGGTCCTATTTAAGCCAGCCCCCACCTAGGGTCTATTTGTGTGGCAGTTATTGGGTT
                                                                  

 5581 TGGTCACAAAACATCCTGAAAATTCGTGCGTGGGCTTCTTTCTCCCTGGTACAAACGTAT
                                                                  

 5641 GGAATGCTTCTTAAAGGGGAACTGTCAAGCTGGTGTCTTCAGCCAGATGACATGAGAGAA
                                                                  

 5701 TATCCCAGAACCCTCTCTCCAAGGTGTTTCTAGATAGCACAGGAGAGCAGGCACTGCACT
                                                                  

 5761 GTCCACAGTCCACGGTACACAGTCGGGTGGGCCGCCTCCCCTCTCCTGGGAGCATTCGTC
                                                                  

 5821 GTGCCCAGCCTGAGCAGGGCAGCTGGACTGCTGCTGTTCAGGAGCCACCAGAGCCTTCCT
                                                                  

 5881 CTCTTTGTACCACAGTTTCTTCTGTAAATCCAGTGTTACAATCAGTGTGAATGGCAAATA
                                                                  

 5941 AACAGTTTGACAAGTACATACACCATA
                                 

KEYS (in order of precedence):
>>>>>> left primer
<<<<<< right primer

ADDITIONAL OLIGOS
                    start  len      tm     gc%   any    3' seq 

 1 LEFT PRIMER       4412   20   60.01   55.00  2.00  0.00 CATTTCCCTCCCTCTCTTCC
   RIGHT PRIMER      4608   20   59.97   50.00  4.00  0.00 AGGCTGACAAACCATGTTCC
   PRODUCT SIZE: 197, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 0.00

 2 LEFT PRIMER       4412   20   60.01   55.00  2.00  0.00 CATTTCCCTCCCTCTCTTCC
   RIGHT PRIMER      4607   20   59.97   50.00  4.00  2.00 GGCTGACAAACCATGTTCCT
   PRODUCT SIZE: 196, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 0.00

 3 LEFT PRIMER       2673   20   60.05   55.00  4.00  3.00 GGGTCACTCCAAGGATCAGA
   RIGHT PRIMER      2920   20   59.99   55.00  4.00  1.00 AATGTGGCTCCCCTACACAG
   PRODUCT SIZE: 248, PAIR ANY COMPL: 3.00, PAIR 3' COMPL: 0.00

 4 LEFT PRIMER       2671   20   60.05   55.00  5.00  2.00 GAGGGTCACTCCAAGGATCA
   RIGHT PRIMER      2920   20   59.99   55.00  4.00  1.00 AATGTGGCTCCCCTACACAG
   PRODUCT SIZE: 250, PAIR ANY COMPL: 4.00, PAIR 3' COMPL: 0.00

Statistics
         con   too    in    in          no    tm    tm  high  high        high      
         sid  many   tar  excl   bad    GC   too   too   any    3'  poly   end      
        ered    Ns   get   reg   GC% clamp   low  high compl compl     X  stab    ok
Left   51689     0     0     0  5578     0 16264 18966     0     9   339   630  9903
Right  51866     0     0     0  5627     0 16606 18698     0     0   323   616  9996
Pair Stats:
considered 3376, unacceptable product size 3355, high end compl 1, ok 20
primer3 release 1.1.0


(primer3_results.cgi 0.4.0 modified for WI)