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Primer Database

Primer Database

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12s

16s

18s

28s

CO1

EF2

CytB

ITS

M13

Opsin

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
12s 12S Tphe AAAGCACRGCACTGAAGATGC mitochondrial PCR/Seq salamanders  
12s 12S e GTRCGCTTACCWTGTTACGACT mitochondrial PCR/Seq    
12s 12S a CTGGGATTAGATACCCCACTA mitochondrial PCR/Seq universal  
12s 12S b TGAGGAGGGTGACGGGCGGT mitochondrial PCR/Seq universal  
12s 12sf GAAACCAGGATTAGATACCC mitochondrial PCR/Seq    
12s 12sr TTTCCCGCGAGCGACGGGCG mitochondrial PCR/Seq    
12s 12s-1f CTTKAAATTYAAARAATTTGGCGG mitochondrial PCR/Seq    
12s 12s-1r AGCGACGGGCGATATGTAC mitochondrial PCR/Seq    
12S 12sDF GTAGATGTACTGGAAACTGCAT nuclear PCR/Seq    
12S 12sDR AAATCGTGCCAGCCGTCGC nuclear PCR/Seq    
12S 12s MB GAGAGTGACGGGCGATGTGT   PCR/Seq    
12S 12S A1 AAACTAGGATTAGATACCCTATTAT   PCR/Seq    

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
16s 16S L CGCCTGTTTAACAAAAACAT mitochondrial PCR/Seq universal  
16s 16S H CCGGTCTGAACTCAGATCACGT mitochondrial PCR/Seq universal  
16s 16s-1472 AGATAGAAACCAACCTGG mitochondrial PCR/Seq crayfish Crandall and Fitzpatrick, 1996
16s 16S 17sub ATASRGTCTRACCTGCCC mitochondrial PCR/Seq crayfish Crandall and Fitzpatrick, 1996
16S 16s-8F AGAGTTTGATCCTGGCTCAG mitochondrial PCR/Seq    
16S 16s-1492R GGTTACCTTGTTACGACTT mitochondrial PCR/Seq    
16S 16s-Arch21F TTCCGGTTGATCCYGCCGGA mitochondrial PCR/Seq    
16S 16s-Arch958R YCCGGCGTTGANTCCAATT mitochondrial PCR/Seq    
16S 16sf-cray GACCGTGCKAAGGTAGCATAATC mitochondrial PCR/Seq    
16S 16sr-cray CCGGTYTGAACTCAAATCATGTAAA mitochondrial PCR/Seq    
16S 16sA ACTTGATATATAATTAAAGGGCCG mitochondrial PCR/Seq    
16S 16sB CTGGCGCCGGTCTGAACTCAAATC mitochondrial PCR/Seq    
16S 16s 704F GTAGCGGTGAAATGCGTAGA Internal Bacterial  seq    
16S 16s 907R CCGTCAATTCCTTTRAGTTT Internal Bacterial seq    
16S 16s ma2 CTACGGTCCTTTCGTACTA mitochondrial PCR/Seq    
16S 16s cs2 AGAAACTGACCTGGCTTACG mitochondrial PCR/Seq    
             
16S-12S 16S-SOF.F2 TTC TTC ACC GAG CAG GCC CAA CTC mitochondrial PCR/Seq Cultlefish  
16S-12S 12S-SOF.R2 ATA AGA TAA GTC GTA ACA TAG TAG G mitochondrial PCR/Seq Cultlefish  

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
18S 18S (5') CTGACGGAAAGATGTCCAAAC nuclear PCR/Seq universal  
18S 18s 1f TACCTGGTTGATCCTGCCAGTAG nuclear PCR/Seq    
18s 18s 1.2F TGCTTGTCTCAAAGATTAAGC nuclear Seq   Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
18s 18s 2F AGGGTTCGATTCCGGAGAGGGAGC nuclear PCR/Seq    
18s 18s 3F GTTCGATTCCGGAGAGGGA nuclear PCR/Seq    
18S 18S 4R CTTAATGCGCCGACGACC nuclear PCR/Seq    
18S 18S 5R AAGAACCGTTTACGAAAGCG nuclear PCR/Seq    
18s 18s 7F GCAATAACAGGTCTGTGATGCCC nuclear PCR/Seq   Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
18S 18s 7R GCATCACAGACCTGTTATTGC nuclear PCR/Seq   Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
18S 18s 9R GATCCTTCCGCAGGTTCACCTAC nuclear PCR/Seq   Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
18S 18s a0.7 ATTAAAGTTGTTGCGGTT nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18S 18s a0.79  TTAGAGTGCTYAAAGC nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18s 18s a1.0 GGTGAAATTCTTGGAYCGTC nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18S 18s a2.0 ATGGTTGCAAAGCTGAAAC nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18S 18s b3.9 TGCTTTRAGCACTCTAA nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18s 18s b3.0 GACGGTCCAACAATTTCACC nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18s 18s b0.5 GTTTCAGCTTTGCAACCAT nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18S 18s ai CCTGAGAAACGGCTACCACATC nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18S 18s b5.0 TAACCGCAACAACTTTAAT nuclear PCR/Seq    
18S 18s bi GAGTCTCGTTCGTTATCGGA nuclear PCR/Seq   Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
18s 18s b2.9 TATCTGATCGCCTTCGAACCTCT nuclear PCR/Seq    
18S 28S (3') TCCTCCGCTTATTGATATGC nuclear PCR/Seq universal  
18S 18S O AAGGGCACCACCAGGAGTGGAG nuclear PCR/Seq    
18S 18S C CGGTAATTCCAGCTCCAATAG nuclear PCR/Seq    
18S 18S Y CAGACAAATCGCTCCACCAAC nuclear PCR/Seq    
18S 18S B TGATCCTTCCGCAGGTTCACCT nuclear PCR/Seq    
18S 18S L CCAACTACGAGCTTTTTAACTG nuclear PCR/Seq    
18S 18S 4F GCAACAAACTTTAATATACG nuclear PCR/Seq    
18S 18S 1R CTTAATTCCGATAACGAACGAGACTCTG nuclear PCR/Seq    
18S            

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
28s 28s-rD1a CCCSCGTAAYTTAAGCATAT nuclear PCR/Seq Universal  
28s 28s-rD1.2a CCCSSGTAATTTAAGCATATTA nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD3a AGTACGTGAAACCGTTCAGG nuclear PCR/Seq Universal  
28s 28s-rD3.2a AGTACGTGAAACCGTTCASGGGT nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28sA GACCCGTCTTGAAGCACG nuclear PCR/Seq Universal Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
28s 28s-rD4a GGAGTCTAGCATGTGTGCAAGTC nuclear PCR/Seq Universal  
28s 28s-rD4.2a CTAGCATGTGYGCRAGTCATTGG nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD4.5a AAGTTTCCCTCAGGATAGCTG nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD4.8a ACCTATTCTCAAACTTTAAATGG nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD5a GGYGTTGGTTGCTTAAGACAG nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD6a GGCGAAAGGGAATCYGGTTC nuclear PCR/Seq Universal  
28s 28s-rD6.2a GAAAGGGAATCYGGTTMMTATTCC nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD3b CCYTGAACGGTTTCACGTACT nuclear PCR/Seq Universal  
28s 28s-rD3.2b TGAACGGTTTCACGTACTMTTGA nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD4b CCTTGGTCCGTGTTTCAAGAC nuclear PCR/Seq Universal  
28s 28s-rD4.2b CCTTGGTCCGTGTTTCAAGACGG nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28sb TCGGAAGGAACCAGCTAC nuclear PCR/Seq Universal Whiting, M. F. et al. Systematic Biology (1997) 46:1-68
28s 28s-rD5b CCACAGCGCCAGTTCTGCTTAC nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD6b AACCRGATTCCCTTTCGCC nuclear PCR/Seq Universal  
28s 28s-rD6.2b AATAKKAACCRGATTCCCTTTCGC nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-rD7b1 GACTTCCCTTACCTACAT nuclear PCR/Seq Universal Whiting, M. F. Zoologica Scripta (2002) 31(1): 93-104
28s 28s-RD3.3a TCGTTGTCCGGTCTTATTGC nuclear PCR/Seq    
28s 28s-RD3.5f GTAGGKCRCCGCGACCCGTYG nuclear PCR/Seq    
28s 28s-RD3.1a TCGGTGCAATATCCTGACAG nuclear PCR/Seq    
28s 28s-RD3.3f GAAGAGAGAGTTCAAGAGTACG nuclear PCR/Seq    
28s 28s-RD4.3f ATTCTGACGTGCAAATCGATCG nuclear PCR/Seq    
28s 28s-RD7.1r CAAGAAYCGCGGCGCTCTAC nuclear PCR/Seq    
28s 28s-RD7.2r GGTACGGACTAGCCCGCGAATAGG nuclear PCR/Seq    
28s 28s-RD4.4f ATAGGGGCGAAAGACYAATCG nuclear PCR/Seq    
28s 28s-RD1.3f GGATTCCCTYAGTAAGKGCG nuclear PCR/Seq    
28s 28s-RD4.5r GCATAGGTTCACCATCTTTCGGG nuclear PCR/Seq    
28s 28s-RD4.6r GAGAATAGGTTGAGGACGTTCG nuclear PCR/Seq    
28s 28s-RD5.5f GGTGGTAGTAGCAAATATTCGAG nuclear PCR/Seq    
28s 28s-RD5.4f GTCGCGGTGAGCGCAGAAG nuclear PCR/Seq    

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
CO1 CO1 a =mtD12 CCAACAGGAATTAAAATTTTTAGATGATTAGC mitochondrial PCR/Seq universal  
CO1 CO1 b TCCAATGCACTAATCTGCCATATTA mitochondrial PCR/Seq universal  
CO1 COI-K (F) GAGCTCCAGATATAGCATTCC mitochondrial PCR/Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 COI-M (F) GGAACATTAGGAATAATTTATGC mitochondrial Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 COI-N   R TGAGAAATTATTCCGAAGGCTGG mitochondrial Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 COI-J   R CAATACCTGTGAGTCCTCCTA mitochondrial Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 COI-Q   R GCTAATCCTAAGAAGTGTTGGGG mitochondrial Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 COI-A   R AGTATAAGCGTCTGGGTAGTC mitochondrial PCR/Seq Crustaceans(?) Schram & Hoeg, 1995
CO1 ACO1f TCAGAATATCGCCGAGG mitochondrial PCR/Seq crayfish  
CO1 ACO1r AGGTGACTAGGAACTCTACAGG mitochondrial PCR/Seq crayfish  
CO1 CO1f CCTGCAGGAGGAGGAGAYCC mitochondrial PCR/Seq    
CO1 CO1r GACTACCCAGACGCTTATACT mitochondrial PCR/Seq    
CO1 CO1Sof-r TCTCCTCCTCCCCTAGGGTC mitochondrial PCR/Seq    
CO1 CO1Sof-f GGTATTTGATCAGGTTTATTAGG mitochondrial PCR/Seq    
CO1 LCO1-1490 GGTCAACAAATCATAAAGATATTG mitochondrial PCR/Seq universal Folmer et al. Molecular Marine Biology and Biotechnology (1994) 3(5), 294-299
CO1 HCO1-2198 TAAACTTCAGGGTGACCAAAAAATCA mitochondrial PCR/Seq universal Folmer et al. Molecular Marine Biology and Biotechnology (1994) 3(5), 294-299
CO1 CO1 caf CTACAAATCATAAAGATATTG mitochondrial PCR/Seq    
CO1 CO1 cabr CTTCAGGGTGACCAAAAAATC mitochondrial PCR/Seq    
CO1 CO1 A1 CCAATAAATATAGARAAAAAATG mitochondrial PCR/Seq    
CO1 CO1 K3 AATATAAGATTTTGRTTACTTCC mitochondrial PCR/Seq    
CO1 CO1 A2r GTTGGAATAGCAATAATTATTG mitochondrial PCR/Seq    
CO1 CO1 K.2f TATGCTATATTAGCTATTGG mitochondrial PCR/Seq    
CO1 CO1 K.1 ATARTTGAAAGWGGTGTTGG mitochondrial PCR/Seq    
CO1 ORCO1F AACGCAACGATGATTTTTTTCTAC mitochondrial PCR/Seq crayfish Scott Taylor
CO1 ORCO1R GGAATYTCAGMGTAAGTRTG mitochondrial PCR/Seq crayfish Scott Taylor
CO1 ORCO2F GGATCGWATRCCRTTATTTGTT mitochondrial PCR/Seq crayfish Scott Taylor
CO1 ORCO2R CCAGTHGGYACYGCAATAAT mitochondrial PCR/Seq crayfish Scott Taylor
CO1 ORCO3F GCTAATTCTTCTATTGAYATT mitochondrial PCR/Seq crayfish Scott Taylor
CO1 ORCO3R CTCTTTCDACTATYCCYCTAG mitochondrial PCR/Seq crayfish Scott Taylor
CO1 PROCAM2F GGACCGAATGCCGTTATTTGTT mitochondrial PCR/Seq crayfish Scott Taylor
CO1 PROCAM2R CCAGTAGGAACTGCAATAAT mitochondrial PCR/Seq    
             
CO II COII-F CTTAYTTAGGATTTCAAGATAG mitochondrial PCR/Seq    
CO II COII-R GGTATAAATCTATGATTTGC mitochondrial PCR/Seq    
CO II COIIa GGGGCTAACCATAGATTCATGCC mitochondrial PCR/Seq universal Palumbi et al. 1991 ; Simple Fools Guide to PCR
CO II COIII AACATCTCGTCATCATTGA mitochondrial PCR/Seq universal Ann Bucklin, 1992 ; Newsletter of Crust. Mol. Tech.
CO II mtD18 CCACAAATTTCTGAACATTGACCA mitochondrial PCR/Seq Crustaceans(?) Crespi insect mtDNA primer kit.
CO II COIIa GGGGCTAACCATAGATTCATGCC mitochondrial PCR/Seq universal Palumbi et al. 1991 ; Simple Fools Guide to PCR
CO II COIII AACATCTCGTCATCATTGA mitochondrial PCR/Seq universal Ann Bucklin, 1992 ; Newsletter of Crust. Mol. Tech.
CO II mtD18 CCACAAATTTCTGAACATTGACCA mitochondrial PCR/Seq Crustaceans(?) Crespi insect mtDNA primer kit.
CO II C2-N-3661 CCA CAA ATT TCT GAA CAT TGA CCA  mitochondrial PCR/Seq Crabs C.L. Morrison et al. 2002; Proc. R. Soc. Lond. B(2002) 269, pp.345-350
CO II C2-J-3138 AGA GCT TCA CCC TTA ATA GAG CAA  mitochondrial PCR/Seq Crabs C.L. Morrison et al. 2002; Proc. R. Soc. Lond. B(2002) 269, pp.345-350
             
COIII COIII A YTATTTATTRCMTCAGAAGT mitochondrial PCR/Seq    
COIII COIII B TCWACAAARTGYCAGTATCA mitochondrial PCR/Seq   Scott Taylor

 

 

Gene Region Primer Name Primer Sequence (5'-3') Type Application Works On Reference
creatine kinase CK6 GACCACCTCCGAGTCATCTCSATG nuclear PCR/Seq   Palimbi & Baker 1994
             
cyt P450 P450 UP1 TTGGAGACGGGCAGTGTGAT nuclear PCR/Seq    
cyt P450 P450 UP2 TCCGAGTACGTCCAGGC nuclear PCR/Seq    
cyt P450 P450 UP3 CATGTTCGAGGGTCACGACACCACG nuclear PCR/Seq    
cyt P450 P450 UP4 ACGCCTATGTACCCTTCAGC nuclear PCR/Seq    
cyt P450 P450 UP5 GCCTGGAATAACCTGGACGAC nuclear PCR/Seq    
cyt P450 P450 UP6 ACCAAGAAAATGACGCAACAAAG nuclear PCR/Seq    
cyt P450 P450 DO1 GCCTGGACGTACTCGGA nuclear PCR/Seq    
cyt P450 P450 DO2 GGAGGGTCTTGAAGCAGGCATTA nuclear PCR/Seq    
cyt P450 P450 DO3 GTGTAGAGGACCCAGTTGAT nuclear PCR/Seq    
cyt P450 P450 DO4 CCAGCGCTGAAGGGTACATAGGCGT nuclear PCR/Seq    
cyt P450 P450 DO5 GCGTCGTCGTCCAGGTTATT nuclear PCR/Seq    
cyt P450 P450 DO6 ATAAATAGCACCTTCCTCAGTAG nuclear PCR/Seq    
Cyt P450 CytP450-F GCCAACACCTGCTTACAAAAACAAGAG nuclear PCR/Seq crayfish Dauphin-Villemant et al., 1999  
Cyt P450 CytP450-R GCGTTATTCTTCAGGTGTTTCCTCC nuclear PCR/Seq crayfish Dauphin-Villemant et al., 1999  
             
Cytb Cytb-MVZ15 GAACTAATGGCCCACACWWTACG mitochondrial PCR/Seq salamanders  
Cytb Cytb-CB2H CCCCTCAGAATGATATTTGTCCTA mitochondrial PCR/Seq salamanders  
Cytb CYTB 1 CCATCCAACATCTCAGCATGATGAAA mitochondrial PCR/Seq universal  
Cytb CYTB 2 CCCTCAGAATGATATTTGTCCTCA mitochondrial PCR/Seq universal  
Cytb CYTB 3 GGCAAATAGGAARTATCATTC mitochondrial PCR/Seq salamanders  
Cytb CYTB F1 TGAGGACARATATCHTTYTGRGG mitochondrial PCR/Seq salamanders  
Cytb CYTB 2.5 TTTGATCCTGTTTCRTGAAG mitochondrial PCR/Seq salamanders  
Cytb CYTB hemthrrev CTTTGRCTTACAAGGYCAATG mitochondrial PCR/Seq salamanders  
Cytb CYTB mertIF TCCAGGTAAAGATAATGGCCC mitochondrial PCR/Seq salamanders  
Cytb CYTB mert2R TCAGTTTTCGGCTTACAGGAC mitochondrial PCR/Seq salamanders  
Cytb CYTB H15915 AACTGCAGTCATCTCCGGTTTACAAGAC mitochondrial PCR/Seq salamanders Kocher et al. Proc. Natl. Acad. Sci. USA 86(1998)
Cytb CYTB L14841 AAAAAGCTTCCATCCAACATCTCAGCATGATGAAA mitochondrial PCR/Seq salamanders Kocher et al. Proc. Natl. Acad. Sci. USA 86(1998)
Cytb Cytb-LGL765   GAAAAACCAYCGTTGTWATTCAACT mitochondrial PCR/Seq snakes, etc. Beacham et al., 1995
Cytb Cytb-H15149 TGCAGCCCCTCAGAATGATATTTGTCCTCA mitochondrial Seq snakes, etc. Kotcher et al. 1989
Cytb Cytb-L15076 ATACTAYGGRTCCTTCCTWAATAAA mitochondrial Seq snakes, etc. Fetzner and Miller, 1999 (MPE)
Cytb Cytb-L15080 TACTACGGCTCWTACCTMAAYAAAGAAG mitochondrial Seq snakes, etc. Fetzner and Miller, 1999 (MPE)
Cytb Cytb-H15919 GACCCAKCTTTGRYTTACAAGGACAA mitochondrial PCR/Seq snakes, etc. Fetzner, 1999 (Biotechniques)
             
D-loop Mt F GCCCCATGCATATAAGCATG mitochondrial PCR/Seq bears  
D-loop Mt R GGAGCGAGAAGAGGTACACGT mitochondrial PCR/Seq bears  
D-loop L15926 TCAAAGCTTACACCAGTCTTGTAAACC mitochondrial PCR/Seq Cougar Ward et al., 1991
D-loop H16498 CCTGAAGTAGGAACCAGATG mitochondrial PCR/Seq Cougar Ward et al., 1991
D-loop 15996L CTCCACCATCAGCACCCAAAGC mitochondrial PCR/Seq Potoroo