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Table 1 Summary of the numbers of reads, identified genes, novel transcribed units, alternative splicing genes and extended genes

From: A global view of porcine transcriptome in three tissues from a full-sib pair with extreme phenotypes in growth and fat deposition by paired-end RNA sequencing

 

2268 AF

2268 liver

2268 LD

2270 AF

2270 liver

2270 LD

total reads

40,000,000

38,808,956

39,020,950

40,000,000

40,133,362

39,164,798

total unmapped reads

14,293,709

13,771,813

14,076,474

15,445,291

14,285,367

13,457,962

reads perfectly matched to the reference genome

16,867,579

17,398,322

12,737,195

15,882,824

17,575,361

13,920,553

reads with < = 2 bp mismatch to the reference genome

8,838,712

7,638,821

12,207,281

8,671,885

8,272,634

11,786,283

reads uniquely matched to the reference genome

22,908,741

22,998,328

23,301,854

21,235,855

23,695,323

23,823,564

reads matched to the reference genome with multi-positions

2,797,550

2,038,815

1,642,622

3,318,854

2,152,672

1,883,272

annotated genes identified in this study

19,062

17,382

15,612

18,695

17,447

15,716

reads uniquely matched to annotated genes

8,508,418

9,465,873

8,615,406

9,075,466

10,219,332

9,530,691

reads matched to annotated genes with multi-positions

10,648,618

15,009,898

13,906,877

10,839,003

15,072,157

13,441,905

novel transcript units

122,931

71,394

48,045

112,052

72,401

69,677

clustered transcriptionally active regions

29,499

22,871

17,085

25,842

21,840

22,099

alternative splicing genes

2882

1,851

1,859

2,832

2,116

1,657

5' extended genes

815

610

587

793

697

593

3' extended genes

1,201

1,375

1,075

1,360

1,224

1,064

Genes extended both 5' and 3' ends

672

551

432

636

590

411