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Table 4 Best quality miRNA targets identified in melon unigenes

From: Analysis of the melon (Cucumis melo) small RNAome by high-throughput pyrosequencing

miRNA annotation Unigene Score (miRanda) Score (TargetFinder) Unigene annotation
miR390|a, b c15d_05-D02-M13R_c 362 2.5 non-annotated unigene
miR390|a, b c15d_05-D02-M13R_c 362 4 non-annotated unigene
miR390|a, b c15d_21-G08-M13R_c 362 2.5 non-annotated unigene
miR390|a, b c15d_21-G08-M13R_c 362 4 non-annotated unigene
miR391|a cCL286Contig1 325 -- histone H1, putative
miR164|a, b cA_04-D07-M13R_c 319 -- non-annotated unigene
miR390|a, b cCL384Contig1 316 -- ATSK11, SK 11ATSK11; protein kinase/protein serine/threonine kinase
miR391|a cPSI_29-G09-M13R_c 313 -- UVR8UVR8 (UVB-RESISTANCE 8); chromatin binding/guanyl-nucleotide exchange factor
miR167|d cCL1653Contig1 200 -- non-annotated unigene
miR167|d cCL2516Contig1 200 -- non-annotated unigene
miR167|a, b cCL1653Contig1 195 1 non-annotated unigene
miR167|a, b cCL2516Contig1 195 0 non-annotated unigene
miR168|a, b c46d_19-A03-M13R_c 195 0 non-annotated unigene
miR171|a cHS_39-C12-M13R_c 195 0 scarecrow-like transcription factor 6 (SCL6)
miR397|a c15d_32-E08-M13R_c 195 0 potential miR397a precursor
miR160|a, b, c cCL5073Contig1 191 0.5 ARF17ARF17 (AUXIN RESPONSE FACTOR 17); transcription factor
miR164|a, b cPSI_18-H09-M13R_c 190 3 ANAC100, ATNAC5ANAC100 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 100)
miR393|a, b cCL3757Contig1 190 2 AFB2AFB2 (AUXIN SIGNALING F-BOX 2); auxin binding/ubiquitin-protein ligasechr3
miR393|a, b cCL4853Contig1 190 1 TIR1TIR1 (TRANSPORT INHIBITOR RESPONSE 1); auxin binding/protein binding/ubiquitin-protein ligase
miR408|a cCL975Contig1 190 2.5 ARPNARPN (PLANTACYANIN); copper ion binding/electron carrierchr2
miR408|a cHS_18-D07-M13R_c 190 2.5 ARPNARPN (PLANTACYANIN); copper ion binding/electron carrierchr2
miR157|a, b, c c46d_26-C05-M13R_c 187 3 SPL4SPL4 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 4); DNA binding/transcription factor
miR157|a, b, c cCI_30-A09-M13R_c 187 2 SPL9SPL9 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 9); transcription factor
miR157|a, b, c cCL2877Contig1 187 3 SPL3SPL3 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 3); DNA binding/transcription factor
miR164|a, b cCI_64-A04-M13R_c 187 2 NAC1, ANAC022NAC1; transcription factorchr1
miR170|a cHS_39-C12-M13R_c 187 1.5 scarecrow-like transcription factor 6 (SCL6)
miR159|a cHS_39-F10-M13R_c 183 3 brassinosteroid signaling positive regulator-related
miR161|a.2 cA_16-D06-M13R_c 183 3 pentatricopeptide (PPR) repeat-containing protein
miR169|a cA_37-E12-M13R_c 183 4 NF-YA9NF-YA9 (NUCLEAR FACTOR Y, SUBUNIT A9); specific transcriptional repressor/transcription factor
miR156|a, b, c, d, e, f c46d_26-C05-M13R_c 182 2 SPL4SPL4 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 4); DNA binding/transcription factor
miR156|a, b, c, d, e, f cCI_30-A09-M13R_c 182 1 SPL9SPL9 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 9); transcription factor
miR156|a, b, c, d, e, f cCL2877Contig1 182 2 SPL3SPL3 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 3); DNA binding/transcription factor
miR157|d c46d_26-C05-M13R_c 182 3 SPL4SPL4 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 4); DNA binding/transcription factor
miR157|d cCI_30-A09-M13R_c 182 2 SPL9SPL9 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 9); transcription factor
miR157|d cCL2877Contig1 182 3 SPL3SPL3 (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 3); DNA binding/transcription factor
miR319|a, b c15d_24-H05-M13R_c 182 4 potential miR319|a, b precursor
miR167|d_melon cCL1653Contig1 -- 0 non-annotated unigene
miR167|d_melon cCL2516Contig1 -- 0.5 non-annotated unigene
miR172|e c15d_13-C08-M13R_c -- 2 non-annotated unigene
miR172|e cA_04-D07-M13R_c -- 2 non-annotated unigene
miR167|a, b cCL2288Contig1 -- 2.5 unknown protein
miR156|a, b, c, d, e, f cCL5542Contig1 173 2.5 kelch repeat-containing F-box family protein
miR157|a, b, c cCL2547Contig1 175 2.5 unknown protein
miR164|a, b cCL2655Contig1 175 2.5 non-annotated unigene