Evaluation of real-time PCR endogenous control genes for analysis of gene expression in bovine endometrium

Walker, Caroline G; Meier, Susanne; Mitchell, Murray D; Roche, John R; Littlejohn, Mathew

doi:10.1186/1471-2199-10-100

BMC Molecular Biology

Table 5 Characteristics of gene specific real-time PCR assays.

From: Evaluation of real-time PCR endogenous control genes for analysis of gene expression in bovine endometrium

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.

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ISSN: 1471-2199

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