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Table 3 List of 40 EST-SSRs with similarities to known genes

From: SSR markers in transcripts of genes linked to post-transcriptional and transcriptional regulatory functions during vegetative and reproductive development of Elaeis guineensis

Functional Category1

GenBank Accession

SSR Locus

SSR Position

SSR Motif2

Gene Information3

Species

Reference

E-value

Cell Growth/Division

CN599543

mEgEST288

ORF

(acaa)3

Cylicin-2

Ricinus communis

ref|XP_002518267.1|

1e-03

 

GH636902

mEgEST122

5' UTR/ORF

(gtat)3

GASA, gibberelic acid stimulated

Fagus sylvatica

emb|CAJ77893.1|

2e-30

Cell Structure

CN601255

mEgEST055

3' UTR

(ga)7

ripening-related protein-like

Oryza sativa

dbj|BAD53655.1|

3e-12

 

GH636141

mEgEST104

5' UTR/ORF

(ga)9

endo-1,3-1,4-beta-d-glucanase

Elaeis guineensis

gb|ACF06491.1|

7e-34

 

GH636466

mEgEST110

5' UTR

(tccc)3

alpha-expansin 6

Gossypium raimondii

gb|ABR57477.1|

6e-55

Disease/Defense

CN600757

mEgEST048

3' UTR

(ag)9

metallothionein-like protein

Typha latifolia

gb|AAK28022.1|

1e-10

 

CN601280

mEgEST056

5' UTR

(ct)7

Rubber elongation factor

Medicago truncatula

gb|ABD28680.1|

4e-19

 

GH636774

mEgEST119

3' UTR

(agc)6

fiber protein Fb2

Zea mays

ref|NP_001148883.1|

2e-28

Energy

JK669188

mEgEST038

5' UTR

(ct)6

enolase

Elaeis guineensis

gb|ACF06525.1|

2e-81

Intracellular traffic

GH636491

mEgEST112

5' UTR

(agg)7

UniGOS12 (GOLGI SNARE 12); SNARE binding

Arabidopsis thaliana

ref|NP_182045.1|

1e-37

Protein Destination and Storage

JK669075

mEgEST034

5' UTR

(tc)16

26S proteasome regulatory particle non-ATPase sub-unit 12

Oryza sativa

ref|NP_001059500.1|

2e-30

 

JK669530

mEgEST046

3' UTR

(ag)16

zinc ion binding protein

Ricinus communis

ref|XP_002522272.1|

2e-27

 

JK668742

mEgEST028

ORF

(ga)7

Thioredoxin

Ricinus communis

ref|XP_002519481.1|

1e-38

 

GH635970

mEgEST100

ORF

(tct)11

thioredoxin h

Hevea brasiliensis

gb|AAD33596.1|

4e-25

 

GH636952

mEgEST123

3' UTR

(tgc)5

20S proteasome alpha subunit E

Glycine max

sp|Q9M4T8.1|

1e-32

Protein synthesis

GH637071

mEgEST126

3' UTR

(tgg)6

60S ribosomal protein L24

Elaeis guineensis

gb|ACF06439.1|

2e-21

 

GH636588

mEgEST114

ORF

(gga)5

proliferating cell nuclear proteinP120

Oryza sativa

dbj|BAD12915.1|

4e-39

Signal Transduction

JK668571

mEgEST023

ORF

(gat)7

rac GTPase activating protein 3

Lotus japonicus

gb|AAC62626.1|

3e-19

 

CN600893

mEgEST053

5' UTR

(tg)7

rac GTPase

Ricinus communis

ref|XP_002514274.1|

1e-10

 

JK668766

mEgEST029

ORF

(gca)5

Calcyclin-binding protein

Ricinus communis

ref|XP_002519682.1|

8e-35

Transcription and Post-transcription

CN600270

mEgEST166

ORF

(agc)6

AP2 domain-containing transcription factor

Musa acuminata

gb|AAV54598.1|

2e-07

 

JK668687

mEgEST027

5' UTR

(gtct)4

retinoblastoma-binding protein

Zea mays

gb|ABF94566.1|

1e-94

 

CN601180

mEgEST054

5' UTR

(ct)9

PHD finger family protein

Arabidopsis lyrata

ref|XP_002877256.1|

13e-13

 

GT119420

mEgEST164

ORF

(gcagta)3

bZIP transcription factor

Oryza sativa

gb|ACF60482.1|

5e-20

 

GT119446

mEgEST283

ORF

(aga)6

C3H-related transcription factor

Oryza sativa

gb|ACF60482.1|

9e-12

 

GT120438

mEgEST089

ORF

(ag)9

MADS box transcription factor (AGL2/SEPALLATA) subfamily

Musa acuminata

gb|ACJ64678.1|

2e-26

 

GH637610

mEgEST138

5' UTR

(ga)8

NAM; No apical meristem (NAM) NAC-like protein

Vitis vinifera

gb|ACX47024.1|

8e-30

 

GT119741

mEgEST074

ORF

(cag)5

poly(A)-binding protein

Nicotiana tabacum

gb|AAF66825.1|

7e-38

 

JK669622

mEgEST079

ORF

(aga)5

nucleolar phosphoprotein (RNA binding domain)

Ricinus communis

gb|EEF32038.1|

1e-26

 

GH636728

mEgEST117

ORF

(ag)12

RNA binding (RRM/RBD/RNP motifs) family protein

Arabidopsis thaliana

gb|AEE75227.1|

2e-16

 

GH637298

mEgEST168

ORF

(agac)3

RNA binding protein

Ricinus communis

gb|EEF30419.1|

2e-05

 

CN599492

mEgEST290

ORF

(ctctcc) 4

BCAS2 protein (spliceosome associated protein)

Zea mays

ref|NP_001150981.1|

3e-42

 

JK669619

mEgEST065

3' UTR

(tttttg)3

putative splicing factor 3b, subunit 3 (RNA binding)

Oryza sativa

dbj|BAD10377.1|

1e-78

Transporters

JK669486

mEgEST207

3' UTR

(tcaa)3

UniABC transporter family, cholesterol/phospholipid flippase

Populus trichocarpa

ref|XP_002308937.1|

5e-09

Unknown or Unclassified Proteins

CN599385

mEgEST002

5' UTR/ORF

(tc)6

predicted protein

Populus trichocarpa

ref|XP_002308462.1|

1e-44

 

CN599993

mEgEST213

ORF

(aga)6

hypothetical protein

Zea mays

gb|ABA99397.2|

1e-07

 

CN600785

mEgEST192

5' UTR

(ct)10

hypothetical protein

Sorghum bicolor

ref|XP_002441621.1|

3e-07

 

CN601056

mEgEST190

ORF

(ccg)8

hypothetical protein

Vitis vinifera

ref|XP_002264805.1|

3e-07

 

CN600741

mEgEST223

ORF

(gag)8

predicted protein

Hordeum vulgare

dbj|BAK01617.1|

1e-30

 

GT120094

mEgEST221

5' UTR

(ttccc)4

hypothetical protein

Oryza sativa

ref|NP_001061665.1|

8e-38

  1. Also shown are the SSR primer pairs that detect polymorphisms in reference breeding material and the position of the SSRs within the transcripts
  2. 1Annotation was assigned to sequences as previously described [16]; 2all sequences are in coding sense; 3most similar sequence from BLASTX analysis is indicated