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Table 1 Genes analyzed by quantitative real-time PCR

From: Medulla oblongata transcriptome changes during presymptomatic natural scrapie and their association with prion-related lesions

 

Gene

Primer sequence

Size (bp)

Accession number (GenBank)

Upregulated genes/sequences

APP

F: ACCCCTGACGCCGTTGAC

121

NM_001076796.1

R: TCATGACCTGGGACATCCTCTC

AQP4

F: GTTCACGGAAATCTTAGCGCT

104

NM_181003.2

R: TCAGTCCGTTTGGAATCACAG

CPPED1

F: TTGGATGGCATCACCGACTT

101

NM_001031771.2

R: TTTGCGACCTCATGAACCAC

GOLGA4

F: TCTACCAAAACCACTGCCTCAA

88

NM_001192125.1

R: TCCCACTACTGGCTCTACATCACT

MPP7

F: GCCTCCTATGCCTGATGACAT

81

NM_001100347.1

R: CCCAGTGGTTCTCTATTTTTGACC

NELL2

F: AAGAGGGAGACGATGGACTGAG

105

NM_001102084.1

R: ACACCAAGACCCCAAACTGCT

OSRS1*

F: GAGGATCTTGTGGAACCATTGA

124

FQ482089.2

R: TACGGACAGCTGAACCCTTTC

OSRS2**

F: TTGTCAGTCCCCATCACCTTT

101

NW_003104406.1

R: CATTGATTTGCACAGAAAACCA

Downregulated genes

CD3G

F: AGCTTCAGACAAGCAGACGCT

101

BC103010.1

R: GGGTTCAGTTCTTCCTCAGGTG

GNLY

F: TCCGTGCCAGTCAATCATGA

101

NM_001075143.1

R: TGCAGACCTTGATGTCCACAC

LAPTM4B

F: GGTACTTGATCCTCAATGCCG

101

NM_205802.1

R: AAAGTCACCCCCGAGTTCAGA

SRSF3

F: CGAAATGCATCGTGATTCCT

101

NM_001034700.1

R: AATAGCCAAAAGCTCGTTCCA

  1. Primers (F: forward and R: reverse) used for gene amplification, amplicon size and GenBank accession numbers of the bovine cDNA sequences used for primer design.
  2. *Ovine Scrapie Related Sequence 1 (OSRS1) has a high identity (92%) with the Bos taurus DNA sequence from clone CH240-103 G5(accession number: FQ482089.2) from 4172 to 4904 bp.
  3. **Ovine Scrapie Related Sequence 2 (OSRS2) has a high identity (93%) with the Bos taurus chromosome 15 genomic scaffold, Bos_taurus_UMD_3.1, whole genome shotgun sequence (accession number: NW_003104406.1) from 2672152 to 2672419 bp.