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Table 3 Primer sequences for qPCR assay, amplicon size, PCR efficiencies, and GenBank accession numbers for the genes used in this study

From: Effects of crowding on the three main proteolytic mechanisms of skeletal muscle in rainbow trout (Oncorhynchus mykiss)

Gene

Sequence 5′ - 3’

TM (°C)

% E

GenBank code

40S ribosomal protein S30 (fau)

Forward

CATTTAGGAGTTGGCGTTGG

60

100%

SRX612429

Reverse

CCAAGGTTGAAAAGCAGGAG

β-actin

Forward

GCCGGCCGCGACCTCACAGACTAC

65

103.6%

KC888023.1

Reverse

GCCGGCCGCGACCTCACAGACTAC

glucocorticoid receptor 1 (gr1)

Forward

Teles et al. 2013 [45]

58

101.2%

Z54210.1

Reverse

 

glucocorticoid receptor 2 (gr2)

Forward

Teles et al. 2013 [45]

63

99.7%

AY495372.1

Reverse

 

mineralocorticoid receptor (mr)

Forward

Teles et al. 2013 [45]

63

102.6%

AF209873.1

Reverse

 

heat-shock protein 70 (hsp70)

Forward

CATCGGTGAGTTCAAGCGTA

60

98.30%

PRJNA518130

Reverse

GCCCTGGTAATGGAGGTGTA

regulated in development and DNA damage response 1 (redd1)

Forward

GGGGGAGGTGTGTCAGAGTA

61

103.5%

XM_021615231

Reverse

TTACGGGACTGGATGGAGAC

krüppel-like factor 15 (klf15)

Forward

GGAGAGGAGGAAGAGGAGG

60

101.1%

XM_021609837.1

Reverse

TGTTCAATGGAGCTGGAAGG

F-box protein 32 (atrogin1)

Forward

GAATCTGCGGCTGTCTGTT

61

99.8%

NM_001195177.1

Reverse

CCTCCTGTTGTCCTTGATGG

muscle RING finger 1 (murf1)

Forward

CAAGAGCATCGAGGAGAACAG

61

97.40%

NC_035094.1

Reverse

TCCTCTGTCACCACATCATCA

calpain 1 (capn1)

Forward

TCCTTTTGGAAGCCATTTT

56

104.6%

AY573919.1

Reverse

GGATATTGTGGGGGTTTT

calpain 2 (capn2)

Forward

GAAGGACAAGGATTTGGACG

60

101.8%

AY573920.1

Reverse

CCTGACAGAGCCTCATAGC

calpastatin L (cast-l)

Forward

CTCAGTAGCCGTGACAA

56

102.2%

AY937407.1

Reverse

GCTCTTGCCATCCTTATT

calpastatin S (cast-s)

Forward

GATGGGGGAGAGAGATGTCA

62

100%

AY937408.1

Reverse

ACTGGGCTGTGTCTGCTT