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Table 3 Cross-species amplification results for 50 primer pairs with no IS-mismatches

From: Design factors that influence PCR amplification success of cross-species primers among 1147 mammalian primer pairs

Gene Huma Mon Dog Cat Hor Cow Goa Pig Ham Rat Mou prot idb GCc Notesd
PTBP2 4 e 4 4 4 4 4 4 4 4 4 4 99 32.8c  
HAT1 4 4 4 4 4 4 4 4 4 4 4 93 39.6  
PTPRU 4 4 4 4 4 4 4 4 4 4 4 95 54.8  
MACF1 4 4 4 4 4 4 4 4 4 4 4 78 37.8  
FRAP1 4 4 4 4 4 4 4 4 4 4 4 99 39.9  
LRP1B 4 4 3 4 3 4 4 4 4 4 4 91 39.5  
LYST 4 4 4 3 3 4 4 4 4 4 0 84 28.6  
HNRPU 4 4 4 2 4 4 4 4 4 4 4 94 39.6  
SLC20A1 4 4 4 2 4 4 4 4 4 4 4 90 39.4  
RND3 4 4 0 4 4 4 4 4 4 4 4 100 51.6  
CDC7 4 2 4 4 4 4 4 4 2 4 0 81 33.6  
PABPC4 4 4 4 4 4 4 4 4 3 2 2 95 51.2  
NR4A2 4 4 4 3 0 4 4 4 4 4 4 99 43.9  
KYNU 3 4 4 3 4 4 4 0 4 4 4 85 30.5  
DDX18 4 4 0 3 4 4 4 4 4 4 4 85 39.4  
CLCN6 4 4 4 4 4 0 4 3 3 4 4 96 52.7 1d
PSCDBP 4 4 3 4 4 0 4 3 4 4 4 81 37.4  
ABCA4 4 4 2 4 4 4 4 2 3 2 3 88 53.5  
MDH1 4 4 4 4 4 4 2 2 4 2 4 96 39.5  
ADD2 4 4 0 4 4 4 2 4 2 4 4 94 51.9  
CTNNA2 4 4 4 4 4 0 0 4 3 4 4 98 45.6  
SLC1A4 4 4 4 4 2 2 4 2 2 3 4 89 51.8  
LAMC1 4 4 4 4 0 4 4 0 4 2 4 92 37.9  
FASLG 4 4 4 2 4 4 4 4 0 0 0 77 40.1  
HK2 2 4 4 4 3 0 3 0 4 4 4 94 46.5 2
ORC4L 3 3 3 4 3 3 3 0 3 4 3 88 33.2  
CCT7 2 4 2 2 1 4 4 4 2 2 4 95 46.2 2
FLVCR 4 4 4 4 4 0 4 1 0 4 0 77 39.0 1
ITGAV 4 4 0 4 4 4 4 4 0 0 0 91 36.4  
MYO1B 4 4 4 4 0 0 0 4 4 4 4 89 31.5  
RGS16 4 4 1 4 3 4 4 4 0 0 0 84 44.7  
PINK1 4 4 0 2 4 3 1 1 4 4 4 81 48.9  
EIF5B 4 4 4 4 3 0 0 4 3 1 4 75 38.7 1
GNB1 3 4 4 4 4 0 3 0 3 0 3 100 51.6  
GDAP2 4 4 3 4 0 0 0 3 4 4 4 94 35.0  
BIN1 0 3 3 3 0 3 3 3 0 3 3 69 60.8 3
WDR8 4 4 4 4 0 0 0 0 4 4 4 89 35.0  
AP4B1 4 4 4 0 4 0 0 0 3 4 4 90 39.0  
CYP2J2 4 4 1 4 3 3 0 2 0 2 0 76 43.7 1
GABRD 0 1 2 2 1 2 2 0 4 4 4 91 64.0 3
SULT1C1 4 4 4 4 4 0 0 0 0 2 0 83 45.9 1
RBBP4 2 2 2 2 2 2 2 0 2 2 2 99 38.8 2
DVL 0 0 4 2 2 2 2 0 2 2 4 95 69.6 3
SAC 4 0 0 4 4 0 0 0 4 4 3 73 45.0  
CCNT2 0 0 0 4 0 0 0 4 4 4 4 69 54.6 3
JAK1 4 0 0 4 0 0 3 4 4 0 4 93 52.4  
TBR1 0 3 0 2 0 1 1 2 3 3 3 99 53.4 3
WDR39 1 0 0 2 1 0 1 0 3 4 4 94 54.1 3
ARID4B 1 3 0 0 0 0 0 0 3 3 1 87 35.7 3
STAT1 0 3 0 0 0 0 0 0 0 4 4 92 39.9 4
  1. aBoxes indicate index species used to design primers. Species abbreviations are: Hum, human; Mon, monkey; Hor, horse; Goa, goat; Ham, hamster; Mou, mouse.
  2. aThese numbers are the percent protein sequence identity between human and mouse.
  3. cThese numbers are the G + C content in the e-PCR amplified human product.
  4. dNotes: 1, rabbit was the second index species for these primer pairs, except FLVCR, for which cat was used; 2, one or more processed pseudogenes apparent in the human genome; 3, contains a > 130 bp window in amplified human product with > 59% G + C; 4, strong primer-dimer seen in amplifications.
  5. eNumbers 0–4 correspond to amplification rankings as exemplified in Fig. 1.