Primer3 Output
PRIMER PICKING RESULTS FOR gi|169234757|ref|NM_199042.2| Mus musculus THAP domain containing, apoptosis associated protein 1 (Thap1), mRNA
No mispriming library specified
Using 1-based sequence positions
OLIGO start len tm gc% any 3' seq
LEFT PRIMER 262 18 59.75 61.11 4.00 2.00 GAAGTGTGGAGGGCCAGA
RIGHT PRIMER 957 26 59.90 42.31 4.00 1.00 AAGAAGGTGTATAGTCTTGTCCCACT
SEQUENCE SIZE: 2267
INCLUDED REGION SIZE: 2267
PRODUCT SIZE: 696, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00
TARGETS (start, len)*: 283,1 915,1
EXCLUDED REGIONS (start, len)*: 280,650
1 CGGCGAGCCGAGTCCTCGCGAGAGGTGAGGCTGAAGCTGCCTCCGCCATCTTGAAGATGG
61 GAGACGGGCGACAGCTGTGGTCCTTCTGCTAAAGCAAACCCCACAACGGACAGGGTAGTC
121 ACTCCCCCACCCCAACCCCCACCCCACGGCGAGGTGATCGTCCCCGTAACTGCTGACCGA
181 CGCCACCGAGAGCGGCGAGCGTTATCAAGGCCGAGCGCGGCGACCCCGACGGCCCCCTTC
241 GCCTGCCTCCCGGGCCGAAGGGAAGTGTGGAGGGCCAGAAGGATGGTGCAGTCCTGCTCC
>>>>>>>>>>>>>>>>>>XXXXXXXXXXXXXXXXXXXXX
301 GCCTACGGCTGCAAGAACCGCTACGACAAGGACAAGCCCGTCTCCTTCCACAAGTTTCCT
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
361 CTTACTCGCCCCAGCCTTTGTAAGCAGTGGGAGGCAGCTGTTAAAAGGAAAAACTTCAAG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
421 CCCACCAAGTACAGCAGCATCTGCTCGGAGCACTTCACCCCGGACTGCTTTAAGAGGGAG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
481 TGCAACAACAAGCTACTGAAGGAGAACGCTGTGCCCACAATATTTCTCTATATCGAGCCA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
541 CATGAGAAGAAGGAAGACCTGGAATCCCAAGAACAGCTCCCCTCTCCTTCACCCCCCGCT
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
601 TCCCAGGTTGATGCTGCTATTGGGCTGCTAATGCCCCCTCTGCAGACCCCTGATAACCTG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
661 TCGGTTTTCTGTGACCACAATTACACTGTGGAGGATACGATGCACCAGAGGAAGAGGATC
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
721 CTGCAGCTGGAGCAGCAGGTGGAGAAACTCAGGAAGAAGCTCAAGACGGCCCAGCAGCGG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
781 TGCCGGCGGCAGGAGAGGCAGCTCGAGAAGCTCAAGGAAGTCGTCCACTTTCAGAGAGAG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
841 AAGGACGACGCGTCCGAGAGGGGCTACGTGATCCTACCAAATGACTACTTTGAAATTGTT
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
901 GAAGTTCCAGCATGAAAAAATGAGATGTGTTAGTGGGACAAGACTATACACCTTCTTTTA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXX <<<<<<<<<<<<<<<<<<<<<<<<<<
961 GCCTACATACAGGAGTTCATTTGAAAAAATAACACTTAATTACTTGTATTAAAAAAACAA
1021 TATTTTTTTAAAATAAATTAGATATATACTGTAAAATTGTAATTTTTTTGTTTGTAATTT
1081 CAGAGTTTCTACATTTTAACAAATATTTAAAAAATCCTTAAACCACCAATATAATGTTGT
1141 ATATTGGTTTCAAGATGGTGGATTGTTTTTCATTTGAGTATTTATAGAAATAATGTAAAA
1201 ATAAAAAGTAGAGAGGGTGATGGTATGATAAAATGATTTAAGTTTAAAAATTAATGCCCT
1261 TTATTGAGATAACTTATAATTTAAATCAGATGTTTAAGTGAGAGCATAGGACAGAGCCTT
1321 TCAGAATATAGAGGTATACATACACACATTTTGTATTTATAGCCAGAGCTTCATTTATTT
1381 TTCTCAATCACTTATCAAAAATGAACTGTCAAGCCAGTATTTGAGGCAAACAATATTTTG
1441 CTGTCTTCAGAAAAATCATTCCATAGTTAATAGTTTCATAAAGAGTAGTTTTAAGAGTAG
1501 ATCCTTTTTGTCCCTAGCGTTATGAAATTAGAAGTGTGTCTTGGGGAGTGGCAGGCCTCC
1561 AATCAGGTATTGGCATCAGTGAAGAGAAAATTGGGGGCGGGGCTGGAGAGATGTTTCAGT
1621 GGTTGAAGGTTCGTGCAAGCCTCGCTGCCTGGGTTTAACCCCTGGGGCCCATGTAAAGGT
1681 GGAAGGAGAGAACCACTCCACAGAGTCACCTTCAGGTCCCCATGTGTGCTGTGACAACCT
1741 TCTAAAGAAAGAAAAGTTGGGACCTGGCTCCTAATATGCTCTGATCATCCCCTGGCAAAG
1801 GCACCCGATTCCACAGCTGTAGTTAAATCTGCATTCAGACCTCTGACAGATTATTTTAGT
1861 AGAGTTTGGTTTGTACTATAATACCGTACTTTGCCCTTTGTACTTAAGTCTTTGATAAAT
1921 TTTCCCTTAACTGTATGATTTTGGACAAGACATTTCATAGAAAATATTTTTTTCAACTCT
1981 TAAGTTAGAAGTTATATCCAATTTACTCCAAGTGACTTACGTTCAAAAGTAATGTGTCGT
2041 GTTTGTGTCGCCGTTGAGACTTAAATATTGCAGTTTCTGTTCACACTGTGGATTGTGTTC
2101 TGTGAGAAAGGTTACGTATGCTTCAAGTGAAAATATGTTCTGAGTGGACAAGTGCTGATA
2161 AAAGAATTCTCTAGGTGTAGGAGAACCGTATTTTATATCTCAGAGGACACTGTAGCTGAA
2221 GAATAGCGGACCTTTCAAGACAGTATTAAAGACATGTTATTCCAGTA
KEYS (in order of precedence):
XXXXXX excluded region
****** target
>>>>>> left primer
<<<<<< right primer
ADDITIONAL OLIGOS
start len tm gc% any 3' seq
1 LEFT PRIMER 262 18 59.75 61.11 4.00 2.00 GAAGTGTGGAGGGCCAGA
RIGHT PRIMER 955 24 57.80 45.83 4.00 1.00 GAAGGTGTATAGTCTTGTCCCACT
PRODUCT SIZE: 694, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00
2 LEFT PRIMER 262 18 59.75 61.11 4.00 2.00 GAAGTGTGGAGGGCCAGA
RIGHT PRIMER 956 25 58.73 44.00 4.00 1.00 AGAAGGTGTATAGTCTTGTCCCACT
PRODUCT SIZE: 695, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00
3 LEFT PRIMER 262 18 59.75 61.11 4.00 2.00 GAAGTGTGGAGGGCCAGA
RIGHT PRIMER 955 26 59.10 42.31 4.00 1.00 GAAGGTGTATAGTCTTGTCCCACTAA
PRODUCT SIZE: 694, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00
4 LEFT PRIMER 262 18 59.75 61.11 4.00 2.00 GAAGTGTGGAGGGCCAGA
RIGHT PRIMER 956 27 59.91 40.74 4.00 1.00 AGAAGGTGTATAGTCTTGTCCCACTAA
PRODUCT SIZE: 695, PAIR ANY COMPL: 5.00, PAIR 3' COMPL: 3.00
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 2806 0 18 617 242 0 62 1675 0 0 0 46 146
Right 12975 0 18 628 1891 0 6122 1848 0 0 41 98 2329
Pair Stats:
considered 1943361, unacceptable product size 1943355, high end compl 1, ok 5
primer3 release 1.1.0
(primer3_results.cgi 0.4.0 modified for WI)