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Table 5 Effects of putative SNPs

From: Transcriptome profiling of porcine testis tissue reveals genes related to sperm hyperactive motility

SNP effect

All dataset

Joined with (i)

Joined with (iii)

Common (i) and (iii)

3’UTR

16,507

1665

72

4

5’UTR

2741

382

16

8

Frameshift

20

2

0

0

Missense

3452

477

27

7

Start lost

8

0

0

0

Stop lost

8

2

0

0

Stop gained

19

1

0

0

Splice region variant

722

90

3

1

Splice acceptor

19

5

0

0

Splice donor

30

6

0

0

Coding sequence variant

4

0

0

0

Inframe deletion

47

1

0

0

Inframe insertion

20

3

0

0

Protein altering variant

1

0

0

0

Synonymous

77,186

704

29

8

SNP impact

 High

104

16

0

0

 Moderate

3518

481

27

7

 Low

8343

761

32

9

 Modifier

243,587

22,707

723

323

  1. SNP effect according to Ensembl VEP for putative variants detected using the animals of contrasts (i) and (iii). The results are shown for all filtered variants in the Landrace dataset and variants in differentially expressed genes. Some variants have more than one predicted effect