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Table 4 Details of the sequenced rare alleles obtained from this study and homology searches with NCBI

From: Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces

Primer name

Gene

Sequenced rare allele

GenBank Acc No.

L

Sequence producing the most significant alignment

E-value

Name of conserved domain present

Domain ID

E-value

BDTG2

Xa1

Raghusail

HR575926

301

Oryza sativa Japonica Group cDNA

2e-135

BED zinc finger

cl02703

2.74e-16

BDTG10

Xa1

Raghusail

HR575924

893

Oryza sativa indica mRNA for XA1

3e-124

-

-

-

IC524526

HR806763

701

Oryza sativa indica mRNA for XA1

0.0

-

-

-

BDTG11

Xa5

Raghusail

HR614233

158

Oryza sativa Indica Group cultivar IRGC 27045 xa5 gene

4e-56

-

-

-

BDTG12

Xa5

Raghusail

HR575927

631

Oryza sativa Indica Group cultivar IRGC 27045 xa5 gene

2e-135

-

-

-

Bangladeshi Patnai

HR614234

766

Oryza sativa Indica Group cultivar IRGC 27045 xa5 gene

2e-135

-

-

-

BDTG13

Xa26

Bhasamanik

HQ832768

968

Oryza sativa isolate BDTG13-Bhasa receptor kinase (Xa26) gene,

0.0

-

-

-

BDTG18

Xa26

Lal Binni

HR806757

539

Oryza sativa (japonica cultivar-group) bacterial blight resistance

protein XA26 (Xa26) gene, complete cds

0.0

-

-

-

Buhrimtui

HR806765

536

-

 

-

-

-

Desi dhan

HR806766

532

Oryza sativa (japonica cultivar-group) bacterial blight resistance

protein XA26 (Xa26) gene, complete cds

bacterial blight resistance

protein XA26 (Xa26) gene, complete cds

0.0

-

-

-

Raghusail

HR575921

490

Oryza rufipogon receptor kinase-like protein, partial cds

0.0

Leucine-rich repeat receptor-like protein kinase

PLN00113

1.23e-05

BDTG 19

Xa27

Aijong

JM426578

638

-

-

-

-

-

Morianghou

JM426580

367

Oryza officinalis ecotype IC203740 bacterial blight resistance protein Xa27 (Xa27) gene, complete cds

0.0

-

-

-

BDTG20

Xa21

Aijong

HR806747

542

Oryza sativa japonica Group Os11g0559200 mRNA

5e-65

Leucine rich repeat N-terminal domain

cl08472

1.90e-07

Bangladeshi Patnai

HR806741

188

Oryza sativa Indica Group Xa21 gene for receptor kinase-like protein, complete cds, cultivar:II you 8220

9e-68

Leucine rich repeat N-terminal domain

cl08472

1.77e-06

BDTG21

Xa21

IC524526

HR806762

530

Oryza rufipogon Xa21F pseudogene, strain:W149

0.0

Leucine-rich repeat receptor-like protein kinase

PLN00113

2.08e-17

Bhasamanik

HR806751

451

Oryza rufipogon Xa21F pseudogene, strain:W149

0.0

Leucine-rich repeat receptor-like protein kinase

PLN00113

7.76e-17

BDTG22

Xa21

Bangladeshi Patnai

HR806742

561

Oryza rufipogon Xa21F pseudogene, strain:W1236

0.0

Leucine-rich repeat receptor-like protein kinase

PLN00113

1.35e-21

BDTG24

Xa21

Bhasamanik

HR806749

678

Oryza rufipogon Xa21F pseudogene, strain:W149

0.0

Protein Kinases, catalytic domain

cl09925

6.18e-05

BDTG25

Xa21

Bangladeshi Patnai

HR806743

1 kb

Oryza rufipogon Xa21F pseudogene, strain:W593

0.0

-

-

-

BDTG26

Xa21(A1)

IC524502

HR806759

248

Oryza longistaminata receptor kinase-like protein gene, family

member A1

7e-110

Leucine rich repeat N-terminal domain

cl08472

1.56e-09

Raghusail

HR575925

268

Oryza longistaminata receptor kinase-like protein gene, family

2e-144

   

Aijong

HR806748

494

Oryza sativa Japonica Group Os11g0559200 mRNA

3e-72

-

-

-

Lal Binni

HR806755

515

Oryza sativa Indica Group DNA, chromosome 8, BAC clone: K0110D12

5e-70

-

-

-

Bhasamanik

HQ832770

457

Oryza longistaminata receptor kinase-like protein gene, family

member A1

6e-116

-

-

-

BDTG27

Xa21(A1)

Bangladeshi Patnai

HR806744

366

Oryza longistaminata receptor kinase-like protein gene, family

member A1

2e-78

-

-

-

Raghusail

HR575922

325

Oryza longistaminata receptor kinase-like protein, family member

A2

4e-104

Leucine-rich repeat receptor-like protein kinase

PLN00113

1.15e-09

BDTG28

Xa21(A1)

Bhasamanik

HR806752

359

Oryza longistaminata receptor kinase-like protein gene, family

member A1

1e-139

Leucine-rich repeat receptor-like protein kinase

PLN00113

1.15e-09

BDTG29

Xa21(A1)

Bhasamanik

HR806750

377

Oryza sativa receptor kinase-like protein gene family member E

2e-146

Leucine-rich repeat, ribonuclease inhibitor (RI)-like subfamily.

PLN00113

2.67e-27

IC524526

HR806761

379

Oryza longistaminata receptor kinase-like protein,

complete cds and family member C,

9e-141

-

-

-

Bangladeshi Patnai

HR806745

382

Oryza sativa Japonica Group Os11g0559200 mRNA,

9e-141

Leucine-rich repeat, ribonuclease inhibitor (RI)-like subfamily.

cl12243

8.45e-05

Lal Binni

HR806761

387

Oryza longistaminata receptor kinase-like protein

complete cds and family member C

9e-141

Leucine-rich repeat receptor-like protein kinase

cl15309

1.15e-09

IC524502

HR806760

345

Oryza sativa Japonica Group Os11g0559200 mRNA

1e-134

-

PLN00113

1.79e-07

BDTG30

Xa21(A1)

Gobindobhog

HR806764

323

Oryza sativa Japonica Group Os11g0559200 (Os11g0559200) mRNA

2e-137

Leucine-rich repeat receptor-like protein kinase

PLN03150

3.69e-11

Bangladeshi Patnai

HR806746

328

Oryza sativa Japonica Group Os11g0559200 mRNA

1e-134

Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily

PLN00113

8.21e-12

BDTG31

Xa21(A1)

Bhasamanik

HR806753

376

Oryza sativa Japonica Group Os11g0559200 mRNA

0.0

-

-

-

Lal Binni

HR806758

384

Oryza sativa Japonica Group Os11g0559200 mRNA

1e-173

-

-

-

BDTG33

Xa21(A1)

Bhasamanik

HR806754

267

Oryza longistaminata receptor kinase-like protein gene, family

member A1

9e-30

-

-

-

BDTG34

Xa21(A1)

Raghusail

HR575923

279

Oryza longistaminata receptor kinase-like protein gene, family

member A1

2e-110

-

-

-

Gobindobhog

HR806767

347

Oryza longistaminata receptor kinase-like protein gene, family

member A1

5e-153

Sugar transferase, PEP-CTERM/EpsH1 system associated;

8.96e-04

4.35e-04

  1. GenBank Acc No. – accession number of the sequences given by GenBank, L – length of sequence in bp.