Table 6

The 65 genes with variable expression patterns among the five accessions

Functional category

ATH1 hits

GenBank ID

Description


30 CELLULAR COMMUNICATION/SIGNAL TRANSDUCTION MECHANISM

14807_at

At2g17170

gb|AAD25145.1|

Protein kinase family contains protein kinase domain, Pfam:PF00069

12528_at

At2g22200

gb|AAD23620.1|

AP2 domain transcription factor

16848_at

At2g20470

gb|AAD25647.1|

Protein kinase, putative contains protein kinase domain, Pfam:PF00069

15069_s_at

At2g28060

gb|AAC98460.1|

AKINbeta3 protein, protein kinase-related

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

18510_at

At1g60630

gb|AAB71975.1|

Leucine rich repeat protein family, similar to receptor kinase GI:498278 from [Petunia integrifolia]

16881_at

At1g69990

gb|AAB61113.1|

Leucine-rich repeat transmembrane protein kinase, putative

18478_at

At1g78530

gb|AAD30583.1|

Protein kinase family contains protein kinase domain, Pfam:PF00069

17223_at

At1g78980

gb|AAC17069.1|

Leucine-rich repeat transmembrane protein kinase, putative

16801_s_at

At4g29990

emb|CAB43834.1|

Identical to light repressible receptor protein kinase

16849_at

At4g36070

emb|CAA18501.1|

Calcium-dependent serine/threonine protein kinase isoform AK1

11 TRANSCRIPTION

18443_at

At2g03060

gb|AAC32924.1|

MADS-box protein

14963_at

At1g09920

gb|AAB60744.1|

Expressed protein, TRAF-type zinc finger-related

19242_at

At2g13570

gb|AAD22680.1|

CCAAT-box binding trancription factor -related

12528_at

At2g22200

gb|AAD23620.1|

AP2 domain transcription factor

12220_at

At2g20100

gb|AAD24387.1|

Expressed protein, bHLH - like protein (bHLH133)

14313_at

At2g26130

gb|AAC31224.1|

Hypothetical protein, zinc finger (C3HC4-type RING finger) family protein

16175_g_at

At2g29610

gb|AAC35234.1|

F-box protein family contains Pfam profile PF00646: F-box domain

14370_at

At1g54550

gb|AAD25633.1|

F-box protein family contains Pfam:PF00646 F-box domain

14760_at

At3g46800

emb|CAB51185.1|

CHP-rich zinc finger protein, putative

16209_s_at

At4g10240

emb|CAB39777.1|

CONSTANS B-box zinc finger family protein

14216_at

At5g01290

gb|AAD56326.1|

mRNA capping enzyme - like protein mRNA capping enzyme (HCE), Homo sapiens

18169_at

At4g31615

emb|CAA19761.1|

Transcriptional factor B3 family low similarity to reproductive meristem gene 1 from [Brassica oleracea var. botrytis]

12282_at

At5g44800

gb|AAC79140.1|

Chromodomain-helicase-DNA-binding (CHD) protein family similar to chromatin remodeling factor CHD3 (PICKLE)

20 CELLULAR TRANSPORT, TRANSPORT FACILITATION AND TRANSPORT ROUTES

20248_at

At2g14670

gb|AAC69375.1|

Sucrose transporter (sucrose-proton symporter), putative

18549_s_at

At2g22950

gb|AAF18608.1|

Potential calcium-transporting ATPase 7, plasma membrane-type

19487_at

At2g25580

gb|AAD31361.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

17363_s_at

At2g32830

dbj|BAA24280.1|

Identical to inorganic phosphate transporter (PHT5)

17242_at

At2g35540

gb|AAC36167.1|

DnaJ domain-containing protein, contains Pfam profile PF00226: DnaJ domain

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein sec61 alpha subunit -related

18196_at

At4g14820

emb|CAB10261.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

19255_at

At4g20770

emb|CAB45843.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

16748_s_at

At4g21300

emb|CAA17548.1|

Pentatricopeptide (PPR) repeat-containing protein contains INTERPRO:IPR002885 PPR repeats

15355_s_at

At4g21560

emb|CAB36800.1|

Expressed protein hypothetical protein YPL065w yeast, PIR2:S60925

70 SUBCELLULAR LOCALIZATION

18443_at

At2g03060

gb|AAC32924.1|

MADS-box protein

12528_at

At2g22200

gb|AAD23620.1|

AP2 domain transcription factor

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein Sec61 alpha subunit -related

15486_at

At4g01880

gb|AAD22650.1|

Expressed protein

12282_at

At5g44800

gb|AAC79140.1|

Chromodomain-helicase-DNA-binding (CHD) protein family similar to chromatin remodeling factor CHD3 (PICKLE)

14 PROTEIN FATE (folding, modification, destination)

19487_at

At2g25580

gb|AAD31361.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

12655_at

At2g31780

gb|AAD32294.1|

Ariadne protein from Drosophila -related

17242_at

At2g35540

gb|AAC36167.1|

DnaJ domain-containing protein, contains Pfam profile PF00226: DnaJ domain

19797_at

At1g64030

gb|AAC27146.1|

Serpin family similar to phloem serpin-1 [Cucurbita maxima] GI:9937311

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein sec61 alpha subunit -related

18408_s_at

At4g03360

gb|AAD14465.1|

Ubiquitin family contains INTERPRO:IPR000626 ubiquitin domain

18196_at

At4g14820

emb|CAB10261.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

19255_at

At4g20770

emb|CAB45843.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

16748_s_at

At4g21300

emb|CAA17548.1|

Pentatricopeptide (PPR) repeat-containing protein contains INTERPRO:IPR002885 PPR repeats

32 CELL RESCUE, DEFENSE AND VIRULENCE

16175_g_at

At2g29610

gb|AAC35234.1|

F-box protein family contains Pfam profile PF00646: F-box domain

17242_at

At2g35540

gb|AAC36167.1|

DnaJ domain-containing protein, contains Pfam profile PF00226: DnaJ domain

14370_at

At1g54550

gb|AAD25633.1|

F-box protein family contains Pfam:PF00646 F-box domain

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

16803_at

At1g61230

gb|AAB71472.1|

Jacalin lectin family similar to myrosinase-binding protein homolog

17294_at

At4g19500

emb|CAA16927.2|

Disease resistance protein (TIR-NBS-LRR class), putative

17306_at

At5g35940

gb|AAB63636.1|

Jacalin lectin family similar to myrosinase-binding protein homolog

42 BIOGENESIS OF CELLULAR COMPONENTS

19487_at

At2g25580

gb|AAD31361.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

20031_at

At4g14310

emb|CAB10210.1|

Expressed protein, peroxisomal membrane protein-related

18196_at

At4g14820

emb|CAB10261.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

19255_at

At4g20770

emb|CAB45843.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

16748_s_at

At4g21300

emb|CAA17548.1|

Pentatricopeptide (PPR) repeat-containing protein contains INTERPRO:IPR002885 PPR repeats

17733_at

At4g28090

emb|CAB36778.1|

Pectinesterase (pectin methylesterase), putative, similar to pollen-specific BP10 protein [SP|Q00624] [Brassica napus]

17586_at

At5g16850

gb|AAD54777.1|

Telomerase reverse transcriptase

12282_at

At5g44800

gb|AAC79140.1|

Chromodomain-helicase-DNA-binding (CHD) protein family similar to chromatin remodeling factor CHD3 (PICKLE)

01 METABOLISM

17817_at

At2g23096

gb|AAC17826.1|

Oxidoreductase -related temporary gene name assignment

18423_at

At1g51260

gb|AAD30638.1|

Acyl-CoA:1-acylglycerol-3-phosphate acyltransferase, putative

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

13726_at

At1g74800

gb|AAD55296.1|

Galactosyltransferase family contains Pfam profile: PF01762 galactosyltransferase

19038_at

At3g52160

emb|CAB41336.1|

Beta-ketoacyl-CoA synthase family protein

17646_at

At4g20080

emb|CAA16616.1|

C2 domain-containing protein contains INTERPRO:IPR000008 C2 domain

14274_at

At5g20980

emb|CAB38313.1|

5-Methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase - like protein

16 PROTEIN WITH BINDING FUNCTION OR COFACTOR REQUIREMENT (structural or catalytic)

12655_at

At2g31780

gb|AAD32294.1|

Ariadne protein from Drosophila-related

18510_at

At1g60630

gb|AAB71975.1|

Leucine rich repeat protein family, similar to receptor kinase GI:498278 from [Petunia integrifolia]

16881_at

At1g69990

gb|AAB61113.1|

Leucine-rich repeat transmembrane protein kinase, putative

17223_at

At1g78980

gb|AAC17069.1|

Leucine-rich repeat transmembrane protein kinase, putative

16801_s_at

At4g29990

emb|CAB43834.1|

Identical to light repressible receptor protein kinase

12282_at

At5g44800

gb|AAC79140.1|

Chromodomain-helicase-DNA-binding (CHD) protein family similar to chromatin remodeling factor CHD3 (PICKLE)

10 CELL CYCLE AND DNA PROCESSING

12655_at

At2g31780

gb|AAD32294.1|

Ariadne protein from DROSOPHILA -related

17242_at

At2g35540

gb|AAC36167.1|

DnaJ domain-containing protein, contains Pfam profile PF00226: DnaJ domain

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

12282_at

At5g44800

gb|AAC79140.1|

Chromodomain-helicase-DNA-binding (CHD) protein family similar to chromatin remodeling factor CHD3 (PICKLE)

02 ENERGY

19487_at

At2g25580

gb|AAD31361.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

18196_at

At4g14820

emb|CAB10261.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

19255_at

At4g20770

emb|CAB45843.1|

Pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat

16748_s_at

At4g21300

emb|CAA17548.1|

Pentatricopeptide (PPR) repeat-containing protein contains INTERPRO:IPR002885 PPR repeats

38 TRANSPOSABLE ELEMENTS, VIRAL AND PLASMID PROTEINS

16879_at

At2g05550

gb|AAD24652.1|

non-LTR retroelement reverse transcriptase -related

15400_at

At4g08110

gb|AAD27901.1|

Expressed protein, CACTA-like transposase family (Ptta/En/Spm)

17201_at

At4g13120

emb|CAB41922.1|

Hypothetical protein

40 CELL FATE

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein sec61 alpha subunit -related

13058_s_at

At4g17580

emb|CAB10538.2|

Similar to SP|Q9LD45 Bax inhibitor-1 (BI-1) (AtBI-1)

41 DEVELOPMENT (systemic)

18443_at

At2g03060

gb|AAC32924.1|

MADS-box protein

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein sec61 alpha subunit -related

34 INTERACTION WITH THE CELLULAR ENVIRONMENT

12358_at

At1g54610

gb|AAC64876.1|

Similar to CRK1 protein GI:7671528 from [Beta vulgaris]

36 INTERACTION WITH THE ENVIRONMENT (Systemic)

12389_at

At1g78720

gb|AAC83037.1|

Protein transport protein sec61 alpha subunit -related

12 PROTEIN SYNTHESIS

16667_at

At3g48960

emb|CAB51060.1|

60S ribosomal protein L13 (RPL13C)


Chen et al. Genome Biology 2005 6:R32   doi:10.1186/gb-2005-6-4-r32

Open Data