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Table 2 Gene definitions and quantification results for certain exemplary genes in the liver tissue sample (read length = 75 bp)

From: A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification

Model

Gene

Counts

Transcript

Strand

Chromosome

Start

End

Length

Ensembl

PIK3CA

1094

4

+

3

178,865,902

178,957,881

9411

EGFR

6644

11

+

7

55,086,714

55,324,313

12961

SLC30A1

9755

1

-

1

211,744,910

211,752,084

5474

PIGY

0

1

-

4

89,442,724

89,442,940

217

PYURF

1799

1

-

4

89,442,136

89,444,964

1361

LUZP6

0

1

-

7

135,612,022

135,612,198

177

MTPN

2618

2

-

7

135,611,509

135,662,101

3775

PECAM1

0

9

-

HG183_PATCH

62,399,863

62,491,136

4671

RefGene

PIK3CA

492

1

+

3

178,866,311

178,952,497

3709

EGFR

2248

4

+

7

55,086,725

55,275,031

6571

SLC30A1

1636

1

-

1

211,748,381

211,752,099

2018

PIGY

1175

1

-

4

89,442,129

89,444,952

1356

PYURF

1175

1

-

4

89,442,129

89,444,952

1356

LUZP6

1908

1

-

7

135,611,503

135,662,204

3884

MTPN

1908

1

-

7

135,611,503

135,662,204

3884

PECAM1

1068

1

-

17

62,396,777

62,407,083

4453