Table 2 Eleven genes in the 350-kb selective sweep region around the Nced.

From: Analysis of elite variety tag SNPs reveals an important allele in upland rice

Gene ID in IRGSP/RAP build 5

Functional annotation

Gene position

Position and effect of protein-altering ETASs

Os12g0434400

Similar to predicted protein aminopeptidase protein metabolic process

14265768

14270781

 

Os12g0434501

Non-protein-coding transcript

14273971

14275100

 

Os12g0434601

Hypothetical conserved gene

14275188

14280955

 

Os12g0434801

Hypothetical genes

14313390

14313689

 

Os12g0435000

Hypothetical conserved gene, zinc finger CCHC-type, nucleic acid binding, zinc ion binding

14376106

14377443

Nonsense mutation at 14376187 resulting in a 27-amino-acid truncation

Os12g0435100

Hypothetical protein

14384557

14385840

 

Os12g0435200

9-cis-epoxycarotenoid dioxygenase (Nced)

14389427

14391376

Non-synonymous mutation at 14390318 resulting in amino-acid substitution from valine to isoleucine

Os12g0437800

Similar to MPI, serine-type endopeptidase inhibitor activity response to wounding

14567889

14568542

 

Os12g0437932

Hypothetical conserved gene

14575640

14575890

 

Os12g0438000

Similar to histone H2A

14580388

14581413

 

Os12g0438100

Hypothetical protein

14589854

14590575

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