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Table 4 Genes called up in 2xX4x and 2xX6x, not up in 4xX2x and 6xX2x.

From: Transcriptional profiles underlying parent-of-origin effects in seeds of Arabidopsis thaliana

AtId

symbol

annotation

GO biological process (function)

At1g03445

BSU1

serine/threonine phosphatase

brassinosteroid mediated signalling

At1g13680

 

phospholipase C, similar to MAP3K-like protein kinase

intracellular signalling cascade

At1g17770

SUVH7

SU(VAR)3-9 homolog, a SET domain protein

chromatin modification

At1g22090

EMB2204

unknown protein

embryonic development

At1g44090

ATGA20OX5

gibberellin 20-oxidase

(isopenicillin-N synthase activity)

At1g48010

 

invertase/pectin methylesterase inhibitor family protein

(pectinesterase inhibitor activity)

  

small, secreted, cysteine rich protein with sequence similarity to

 

At1g60985

SCRL6

SCR (S locus cysteine-rich protein)

signal transduction

At1g65300

PHE2/AGL38

MADS-box family transcription factor

regulation of transcription

At1g65330

PHE1/AGL37

MADS-box family transcription factor

regulation of transcription/embryonic development

  

bifunctional cytosolic hydroxymethyldihydropterin

 

At1g69190

 

pyrophosphokinase/dihydropteroate synthase (HPPK/DHPS)

response to oxidative stress

At1g71770

PAB5

polyadenylate-binding protein

translational initiation

  

protease inhibitor/seed storage/lipid transfer protein (LTP)

 

At1g73560

 

family protein

lipid transport

At1g73610

 

GDSL-motif lipase/hydrolase family protein

lipid metabolic process

At1g77510

ATPDIL1-2

protein disulfide isomerase

cell redox homeostasis

At2g02000

GAD3

glutamate decarboxylase, calmodulin binding

carboxylic acid metabolic process

At2g02010

GAD4

glutamate decarboxylase, calmodulin binding

carboxylic acid metabolic process

At2g02490

 

unknown protein

unknown

At2g02515

 

unknown protein

unknown

At2g15740

 

zinc finger (C2H2 type) family protein

regulation of transcription

At2g18490

 

zinc finger (C2H2 type) family protein

regulation of transcription

At2g23170

GH3.3

IAA-amido synthase

response to auxin stimulus/auxin homeostasis

At2g25330

 

meprin and TRAF homology domain-containing protein

unknown

At2g25700

ASK3

E3 ubiquitin ligase SCF complex subunit SKP1/ASK1 (At3)

(ubiquitin-protein ligase activity)

At2g26050

 

zinc ion binding

unknown

At2g30810

 

gibberellin-regulated family protein

response to gibberellin stimulus

At2g36560

 

DNA-binding protein-related

unknown

At2g39640

 

glycosyl hydrolase family 17 protein

carbohydrate metabolic processes

At2g43670

 

glycosyl hydrolase family 17 protein

unknown

At2g45110

ATEXPB4

beta-expansin

cellulose and pectin-containing cell wall loosening

At3g02670

 

proline-rich family protein

phosphate transport

At3g05460

 

sporozoite surface protein-related

unknown

At3g05860

AGL45

MADS-box family transcription factor

regulation of transcription

At3g10780

 

emp24/gp25L/p24 family protein

intracellular protein transport

   

cell redox homeostasis/intracellular signalling

At3g11920

 

glutaredoxin-related

cascade

At3g17150

 

pectinesterase inhibitor

(pectinesterase inhibitor activity)

At3g21410

FBW1

F-box family protein

ubiquitin-dependent protein catabolic process

At3g24510

GIG2

defensin-like (DEFL) family protein

unknown

At3g49770

 

unknown protein

unknown

At3g57160

 

unknown protein

unknown

At3g57270

BG1

glycosyl hydrolase family 17 protein, beta-1,3-glucanase

carbohydrate metabolic process

At4g16500

 

cysteine protease inhibitor family protein

(enzyme regulator activity)

At4g25530

FWA

homeodomain protein

regulation of transcription

  

small, secreted, cysteine rich protein with sequence similarity to

 

At4g29285

LCR24

the PCP (pollen coat protein) gene family

unknown

  

chromatin remodeling factor, strong similarity to CHD3

chromatin assembly or disassembly/regulation of

At4g31900

 

(PICKLE)

transcription

At4g32105

 

galactosyltransferase

protein amino acid glycosylation

At4g35725

 

unknown protein

unknown

At4g36590

AGL40

MADS-box transcription factor

regulation of transcription

At4g37360

CYP81D2

cytochrome P450 family protein

electron transport

At4g39650

GGT2

gamma-glutamyltranspeptidase

glutathione catabolic process

At5g05260

CYP79A2

cytochrome P450

glucosinolate biosynthesitic process

  

protease inhibitor/seed storage/lipid transfer protein (LTP)

 

At5g09370

 

family protein

lipid transport

At5g09730

BXL3

glycosyl hydrolase family 3 protein, beta-xylosidase

carbohydrate metabolic process

At5g10440

CYCD4;2

cyclin family protein

regulation of progression through cell cycle

At5g12070

 

self-incompatibility protein-related

unknown

At5g14960

E2L1/DEL2

transcription factor/E2F-like repressor

regulation of progression through cell cycle

At5g20710

BGAL7

beta-galactosidase

lactose catabolic process

At5g34883

 

unknown protein

unknown

At5g34885

 

unknown protein

unknown

At5g40040

RPP2E

60S acidic ribosomal protein P2

translational elongation

At5g46950

 

invertase/pectin methylesterase inhibitor family protein

(pectinesterase inhibitor activity)

At5g50480

 

CCAAT-box binding transcription factor Hap5a

regulation of transcription

At5g54220

 

defensin-like (DEFL) family protein

Unknown

  1. *bold AtId = also down in 4 × 2, 6 × 2 (SLR/pSLR ≤-0.6)
  2. Up = (SLR/pSLR ≥ 0.6), not up = (SLR/pSLR (≤ 0.3).
  3. GO annotations were obtained from TAIR (http://www.arabidopsis.org/tools/bulk/go/index.jsp; Berardini et al., 2004). GO function terms are provided where no biological process terms were annotated.