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Table 3 Novel mRNA isoform form the 12 milk somatic cells collected from 6 Holstein dairy cows and their predicted gene name

From: Identification of novel alternative splicing associated with mastitis disease in Holstein dairy cows using large gap read mapping

Category

Feature ID

Position

FDRa

Fold change

Predicted gene

Predicted species

Identity (%)

Pred.geneb accession

Immune

Gene_1149_1

11:98497637–98,529,714

4.88E-05

−108.43

Maltose-binding periplasmic protein, Endoglin

E. coli K-12

61.18

5HZV_A

Gene_1149_8

11:98510691–98,529,677

1.04E-06

−1312.31

Maltose-binding periplasmic protein, Endoglin

E. coli K-12

62.90

5HZV_A

Gene_593_7

11:1185527–1,232,139

8.77E-05

36.05

ORF2 contains a reverse transcriptase domain

Homo sapiens

40.82

1VYB_A

Gene_2310_2

3:86164085–86,182,808

3.12E-05

17.73

ORF2 contains a reverse transcriptase domain

Homo sapiens

36.17

1VYB_A

Gene_926_6

11:62511669–62,519,754

1.07E-04

419.48

Protein Pellino Homolog 2

Homo sapiens

87.72

3EGB_A

Gene_2644_2

11:6716314–6,728,323

1.17E-04

22.49

Crystal structure of an Interleukin-1 Receptor

Homo sapiens

89.13

3O4O_C

Gene_657_5

11:6709199–6,716,867

1.17E-04

792.39

Crystal Structure of An Interleukin-1 Receptor

Homo sapiens

59.78

3O4O_C

Gene_1180_2

11:99159315–99,178,645

1.41E-06

−3352.94

WD repeat-containing protein 34

Homo sapiens

89.47

6RLB_D

Gene_343_3

6:115952167–115,960,221

4.28E-05

47.64

uS9

Oryctolagus cuniculus

43.55

6P4G_R

Normal cell function

Gene_1007_5

11:72505640–72,508,871

7.29E-05

228.43

Prolactin regulatory element-binding protein

Homo sapiens

73.58

5TF2_A

Gene_966_1

11:71324276–71,361,339

7.86E-05

1401.95

Protein fosB

Homo sapiens

90.48

5VPA_A

Gene_726_6

11:14696388–14,725,870

5.87E-05

−152.57

Spastin

Homo sapiens

82.09

6PEK_A

Gene_1335_4

11:106231708–106,235,668

1.02E-04

−83.18

NADPH-cytochrome P450 reductase

Saccharomyces cerevisiae

55.81

3FJO_A

Unknown

Gene_943_4

11:66667335–66,667,877

6.67E-05

−230.47

    

Gene_1711_9

19:26666821–26,669,665

1.07E-04

−54.49

 

Gene_1711_7

19:26656544–26,669,665

1.28E-04

73.31

    
  1. aFDR: False discovery rate; bAccession number of predicted gene using NCBI, which is the unique identifier for a sequence record. Novel mRNA isoform from the milk somatic cells of Holstein dairy cows had non - annotated genes in the ARS.UCD1.2 bovine reference genome and were later annotated with a predicted gene using NCBI blast (blastx; https://blast.ncbi.nlm.nih.gov/Blast.cgi)
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BMC Genomics

ISSN: 1471-2164

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