Comparative transcripome data for commercial maturity and physiological maturity of ‘Royal Gala’ apple fruit under room temperature storage condition

•RNA-Seq analysis of “Royal Gala” apple fruits during postharvest ripening at room temperature.•Transcriptomic differences between samples provide an overview into the molecular mechanisms underlying the postharvest ripening.•Novel identified genes and/or transcription factors provide new clues to illuminate the complicated ripening process.