Table 5.
Characteristics of gene specific real-time PCR assays.
| Experimentally derived genes | ||||||
| Gene symbol | Accession | Amplicon size (bp) | PCR efficiency | |||
| DNAJC17 | DnaJ (Hsp40) homolog, subfamily C, member 17 | NM_001046276 | Left primer | TCTGAAGATTTCCTGGTTGGA | 90 | 1.92 |
| Right Primer | CTCTCGGACACCACTGAGC | |||||
| Probe | #57: GGCCCCAG | |||||
| HDAC1 | histone deacetylase 1 | NM_001037444 | Left primer | GGATGAGAAAGAGAAAGATCCAGA | 76 | 1.53 |
| Right Primer | TTCTTGCTTCTCTTCCTTGGTT | |||||
| Probe | #35:AGAAGAGGA | |||||
| RANBP10 | RAN binding protein 10 | NM_001098125 | Left primer | CTCAACAGCGCCATTTTAGA | 94 | 1.81 |
| Right Primer | CCATGAGCCGTAGACATTCA | |||||
| Probe | #37:TGCCCTGG | |||||
| CNOT7 | CCR4-NOT transcription complex, subunit 7 | NM_001034312 | Left primer | GATAGGACCGCAGCATCAG | 111 | 1.82 |
| Right Primer | CCACAATATTTGGCATCATCA | |||||
| Probe | #100:GCTCACAG | |||||
| ACTR1A | ARP1 actin-related protein 1 homolog A, centractin alpha (yeast) | XM_879421 | Left primer | TATCTGCACCGCAGGAGAG | 96 | 1.54 |
| Right Primer | CCTTCTTAGAGACCCACATCTTCT | |||||
| Probe | #130:CTGGACAC | |||||
| BBS2 | Bardet-Biedl syndrome 2 | NM_001038160 | Left primer | GAGCAGGTCATCTGCGTGT | 132 | 1.90 |
| Right Primer | TCCCCTCCTAAGAAGAAGCTGT | |||||
| Probe | #150:TGCTGTTC | |||||
| SUZ12 | suppressor of zeste 12 homolog (Drosophila) | XM_582605 | Left primer | GAACACCTATCACACACATTCTTGT | 130 | 1.99 |
| Right Primer | TAGAGGCGGTTGTGTCCACT | |||||
| Probe | #150:GAACAGCA | |||||
| ZNF131 | zinc finger protein 131 | NM_001101218 | Left primer | AGAAAGAAGCTTTATGAATGTCAGG | 94 | 1.90 |
| Right Primer | GTTTATCTCCAGTGTGTATCACCAG | |||||
| Probe | #33:AGCTGGGA | |||||
| SLC30A6 | solute carrier family 30 (zinc transporter), member | NM_001075766 | Left primer | CAGTTGGACAAACTTATCAGAGAGG | 66 | 1.90 |
| Right Primer | ATGCTCATTTCGGACTTCCA | |||||
| Probe | #58:GGATGGAG | |||||
| C2ORF29 | LOC506268 similar to Uncharacterized protein C2orf29 | XM_582695 | Left primer | CCTTCAAGAGCCCCCTGT | 64 | 1.96 |
| Right Primer | GGGTCCTTTTCCAACTCTCC | |||||
| Probe | #73:TCCTCAGC | |||||
| Literature derived genes | ||||||
| Gene symbol | Accession | |||||
| RPS9 | ribosomal protein S9 | NM_001101152 | Left primer | TGAGGATTTCTTGGAGAGACG | 126 | 1.97 |
| Right Primer | ATGTTCACCACCTGCTTGC | |||||
| Probe | #138:ATCCACCA | |||||
| UXT | ubiquitously-expressed transcript | NM_001037471 | Left primer | AACTTCTTCGTTGACACAGTGG | 130 | 2.01 |
| Right Primer | CTGTGAGGAGACTGCTCTTACG | |||||
| Probe | #29:GGCAGAAG | |||||
| GAPDH | glyceraldehyde-3-phosphate dehydrogenase | NM_001034034 | Left primer | GAAGCTCGTCATCAATGGAAA | 67 | 1.94 |
| Right Primer | CCACTTGATGTTGGCAGGAT | |||||
| Probe | #9:CATCACCA | |||||
| PPIA | peptidylprolyl isomerase A (cyclophilin A) | NM_178320 | Left primer | GTCAACCCCACCGTGTTCT | 99 | 1.94 |
| Right Primer | TTCTGCTGTCTTTGGAACTTTG | |||||
| Probe | #152:GACGGCGA | |||||
| RPS15A | ribosomal protein S15a | NM_001037443 | Left primer | TCAGCCCTAGATTTGATGTGC | 104 | 1.85 |
| Right Primer | GCCAGCTGAGGTTGTCAGTA | |||||
| Probe | #32:CTGCTCCC | |||||
| Gene of interest | ||||||
| Gene symbol | Accession | |||||
| OXTR | Oxytocin receptor | NM_174134 | Left primer | CGTGCAGATGTGGAGTGTCT | 96 | 1.99 |
| Right Primer | TTGCAGCAGCTGTTGAGG | |||||
| Probe | #162:TCCTGGC | |||||
Roche Universal probe library assays were designed for 15 candidate endogenous control genes including 10 experimentally derived genes, five commonly used genes and one target gene - OXTR.