Table 4

Best quality miRNA targets identified in melon unigenes

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


Gonzalez-Ibeas et al. BMC Genomics 2011 12:393   doi:10.1186/1471-2164-12-393

Open Data