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Table 2 Top 10 most abundant protein-coding transcripts identified in each alfalfa stem internodes library.

From: Using RNA-Seq for gene identification, polymorphism detection and transcript profiling in two alfalfa genotypes with divergent cell wall composition in stems

Unique_ID

Libraries

Putative Functions

 

708_ES

708_PES

773_ES

773_PES

 

------------ RPKM-normalized expression counts ------------

MSGI1_2417

6068 (1)

6754 (1)

3271 (2)

6034 (1)

Leucine-rich repeat family protein

MSGI1_8746

4812 (2)

4697 (3)

3850 (1)

3586 (2)

Chlorophyll a/b binding protein

MSGI1_523

4213 (3)

5428 (2)

2719 (6)

3552 (3)

Beta ketoacyl CoA synthase

MSGI1_18145

3859 (4)

979

2555 (8)

3400 (4)

Rubisco small chain

MSGI1_27309

748

2453 (7)

1317

3336 (5)

Metallothionein

MSGI1_11989

2315 (6)

2574 (5)

1171

2387 (6)

Uncharacterized protein

MSGI1_6529

265

328

2393 (9)

2350 (7)

Glycine rich protein

MSGI1_1166

1458

1486

901

2182 (8)

AAA ATPase

MSGI1_62398

160

225

1267

2168 (9)

Stress (ABA)-inducible protein

MSGI1_21335

2012 (8)

2465 (6)

1275

2155 (10)

Cytochrome P450-like

MSGI1_8707

2762 (5)

2632 (4)

1854

1833

Chlorophyll a/b binding protein

MSGI1_4749

1425

1682 (10)

1298

1693

Polyubiquitin

MSGI1_5229

2287 (7)

2140 (8)

1507

1561

Chlorophyll a/b binding protein

MSGI1_1270

744

969

3145 (3)

1470

Caffeic acid O-methyltransferase

MSGI1_1415

1723 (9)

1215

764

1468

Elongation factor 1-alpha

MSGI1_36219

1633

1777 (9)

723

1256

Uncharacterized protein

MSGI1_5153

1705 (10)

1531

1058

1090

Chlorophyll a/b binding protein

MSGI1_29285

324

513

2861 (4)

1035

Stress (ABA)-inducible protein

MSGI1_13276

86

77

2750 (5)

423

Cold acclimation responsive protein

MSGI1_7576

274

114

2357 (10)

284

Cold-acclimation-specific protein (CAS)

MSGI1_96533

11

5

2580 (7)

16

Cold acclimation-specific protein CAS)

  1. Top 10 most abundant protein-coding transcripts selected from each library are highlighted in bold. Numbers enclosed in parenthesis represent rank based on transcript frequency for the top 10 most abundant protein-coding transcripts in each library.