Table 5

KOG-assigned EST clusters predicted to be highly 1N-specific based on statistical comparison of libraries

Cluster ID

Number of 1N ESTs

P-value

Homolog ID

Homolog description

BLAST


Amino acid transport and metabolism

GS01965

6

7.8 × 10-3

CDO_CAEBR

Cysteine dioxygenase

8 × 10-19

GS00820

7

3.9 × 10-3

*Q8GYS4_ARATH

Putative uncharacterized protein

5 × 10-11

Carbohydrate transport and metabolism

GS01922

6

7.8 × 10-3

AAPC_CENCI

Putative apospory-associated protein C

2 × 10-25

Cell cycle control, cell division, chromosome partitioning

GS00508

6

7.8 × 10-3

Cyclin_N

Cyclin, N-terminal domain

1 × 10-09

Chromatin structure and dynamics

GS09138

13

6.1 × 10-5

H4_OLILU

Histone H4

1 × 10-38

Cytoskeleton

GS00708

6

7.8 × 10-3

DYI3_ANTCR

Dynein intermediate chain 3, ciliary

6 × 10-62

Function unknown

GS00091

6

7.8 × 10-3

EMAL4_MOUSE

Echinoderm microtubule-associated protein-like 4

4 × 10-36

GS02362

7

3.9 × 10-3

*A8Q1G0_MALGO

Putative uncharacterized protein

8 × 10-16

GS00939

6

7.8 × 10-3

* B8BBW9_ORYSI

Putative uncharacterized protein

9 × 10-08

General function prediction only

GS01285

6

7.8 × 10-3

EHMT2_MOUSE

Histone-lysine N-methyltransferase

3 × 10-13

GS08284

8

2.0 × 10-3

EI2B_AQUAE

Putative translation initiation factor eIF-2B

4 × 10-27

GS00938

7

3.9 × 10-3

MORN3_HUMAN

MORN repeat-containing protein 3

4 × 10-18

GS00985

6

7.8 × 10-3

PTHD2_MOUSE

Patched domain-containing protein 2

2 × 10-08

Inorganic ion transport and metabolism

GS01939

6

7.8 × 10-3

AMT12_ARATH

Ammonium transporter 1 member 2

2 × 10-25

GS02431

8

2.0 × 10-3

RABL5_DANRE

Rab-like protein 5

3 × 10-28

GS01141

6

7.8 × 10-3

TM9S2_RAT

Transmembrane 9 superfamily member 2

7 × 10-84

GS00197

6

7.8 × 10-3

ARF1_SALBA

ADP-ribosylation factor 1

1 × 10-70

Nucleotide transport and metabolism

GS00406

7

3.9 × 10-3

NDK7_HUMAN

Nucleoside diphosphate kinase 7

2 × 10-32

Posttranslational modification, protein turnover, chaperones

GS00465

6

7.8 × 10-3

TRAP1_DICDI

TNF receptor-associated protein 1 homolog, mitochondrial precursor

1 × 10-98

GS04078

6

7.8 × 10-3

BIRC7_HUMAN

Baculoviral IAP repeat-containing protein 7

2 × 10-06

GS01693

6

7.8 × 10-3

IQCAL_HUMAN

IQ and AAA domain-containing protein ENSP00000340148

3 × 10-41

GS00324

8

2.0 × 10-3

TTLL4_HUMAN

Tubulin polyglutamylase

1 × 10-42

GS06285

7

3.9 × 10-3

IAP3_NPVOP

Apoptosis inhibitor 3

1 × 10-05

GS03771

6

7.8 × 10-3

14335_ORYSJ

14-3-3-like protein GF14-E

1 × 10-34

GS01424

6

7.8 × 10-3

PCSK7_RAT

Proprotein convertase subtilisin/kexin type 7 precursor

2 × 10-08

GS01530

6

7.8 × 10-3

YDM9_SCHPO

Uncharacterized RING finger protein C57A7.09 precursor

3 × 10-07

GS00537

7

3.9 × 10-3

XRP2_XENLA

Protein XRP2

5 × 10-20

Signal transduction mechanisms

GS01456

8

2.0 × 10-3

CML12_ARATH

Calmodulin-like protein 12

3 × 10-11

GS03471

6

7.8 × 10-3

DNAL1_CHLRE

Flagellar outer arm dynein light chain 1

1 × 10-52

GS00910

14

3.1 × 10-5

KAPR2_DROME

amp-dependent protein kinase type II regulatory subunit

2 × 10-08

GS04612

6

7.8 × 10-3

RHOM_DROME

Protein rhomboid

3 × 10-08

GS02444

11

2.4 × 10-4

ANR11_HUMAN

Ankyrin repeat domain-containing protein 11

3 × 10-09

GS02191

6

7.8 × 10-3

LRC50_HUMAN

Leucine-rich repeat-containing protein 50

1 × 10-54

GS00234

7

3.9 × 10-3

KCC1A_RAT

Calcium/calmodulin-dependent protein kinase type 1

1 × 10-51

GS00184

6

7.8 × 10-3

TNI3K_RAT

Serine/threonine-protein kinase

3 × 10-14

GS01544

7

3.9 × 10-3

GS03554

7

3.9 × 10-3

PH

Plecstrin homology domain

3 × 10-09

Transcription

GS00117

8

2.0 × 10-3

MYB_DROME

Myb protein

9 × 10-06

GS00273

8

2.0 × 10-3

MYB_CHICK

Myb proto-oncogene protein (C-myb)

3 × 10-34

GS01762

6

7.8 × 10-3

MYBB_CHICK

Myb-related protein B

5 × 10-06


Only clusters with zero ESTs originating from the 2N library are shown. The number of 1N EST reads in each cluster and the P-value for significance of the difference between libraries are shown. When no Swiss-Prot homolog was detected, ID and homology values for the top Uniprot homolog are given (indicated by an asterisk), or the CDD name and homology values are given (indicated by †). Clusters are arranged by KOG class. Clusters in bold were chosen for RT-PCR validation. Additional data file 4 gives a complete list of all clusters predicted to be 1N-specific by statistical comparison of libraries.

von Dassow et al. Genome Biology 2009 10:R114   doi:10.1186/gb-2009-10-10-r114

Open Data