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Detail information of cpa-miR396

Basic Info

Non-coding RNA ID

cpa-miR396

Species

Carica papaya

class

miRNA

Chromosome

Start Site (precursors if it is microRNA)

End Site (precursors if it is microRNA)

Strand

Length

Assembly

Annotation

Source Gene Model

Reference

PMID: "24275495"

miRBase: annotating high confidence microRNAs using deep sequencing data

Kozomara, A. and Griffiths-Jones, S.

Nucleic acids research, 42, D68-73.(2014)

Sequence and structure Info

Stem-loop sequence[cpa-MIR396]

UUCCACAGCUUUCUUGAACUGCAUGAUCUGUAUUAGGAGAAAAUUCUGUAUAUCGAUUGCGGUUCAAUAAAGCUGUGGGAAG

Secondary structure of stem-loop sequence

To make high resolution picture for your own, please download the .ps file.

Mature sequence[cpa-miR396]

UUCCACAGCUUUCUUGAACUG

Targets Info

target name

Alignment

Expection

Target Description

Target type

Method

EX242100

ncRNA:	21	GUCAAGUUCUUUCG-ACACCUU	1
		\|*\|\|\|\|\|\|\|\|\|\|\|\|-\|\|\|\|\|\|\|
targets:	457	CCGUUCAAGAAAGCCUGUGGAA	478

homologue to UniRef100_A7PPI1 Cluster: Chromosome chr8 scaffold_23, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr8 scaffold_23, whole genome shotgun sequence - Vitis vinifera (Grape), partial (19%)

coding gene

psRNATarget[Detail]

EX257580

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	260	CAGAUCAAGAAAGCUGAGGGA	280

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (39%)

coding gene

psRNATarget[Detail]

EX259347

ncRNA:	21	GUCAAGUUCUUUCG-ACACCUU	1
		\|*\|\|\|\|\|\|\|\|\|\|\|\|-\|\|\|\|\|\|\|
targets:	247	CCGUUCAAGAAAGCCUGUGGAA	268

similar to UniRef100_Q8L8A8 Cluster: Transcription activator; n=1; Arabidopsis thaliana|Rep: Transcription activator - Arabidopsis thaliana (Mouse-ear cress), partial (8%)

coding gene

psRNATarget[Detail]

EX269451

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|=\|\|\|\|\|\|\|\|\|\|\|
targets:	691	CAGUUCAGUAAAGCUAUGGAA	711

similar to UniRef100_Q6H975 Cluster: STY-L protein; n=1; Antirrhinum majus|Rep: STY-L protein - Antirrhinum majus (Garden snapdragon), partial (28%)

coding gene

psRNATarget[Detail]

EX271321

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	802	CAGAUCAAGAAAGCUGAGGGA	822

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (93%)

coding gene

psRNATarget[Detail]

EX273763

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		=\|\|\|\|\|\|\|\|\|\|=\|=\|\|\|\|*\|=
targets:	760	UAGUUCAAGAAGGUUGUGUAG	780

similar to UniRef100_A7P7V8 Cluster: Chromosome chr3 scaffold_8, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr3 scaffold_8, whole genome shotgun sequence - Vitis vinifera (Grape), partial (28%)

coding gene

psRNATarget[Detail]

EX283456

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|=\|\|\|\|\|\|\|\|\|\|\|
targets:	525	CAGUUCAGUAAAGCUAUGGAA	545

similar to UniRef100_A7QAB5 Cluster: Chromosome undetermined scaffold_70, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome undetermined scaffold_70, whole genome shotgun sequence - Vitis vinifera (Grape), partial (21%)

coding gene

psRNATarget[Detail]

EX285864

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		=\|\|\|\|=\|\|\|\|\|\|\|\|\|\|\|\|=
targets:	736	UACUUCGAGAAAGAUGUGGAG	756

weakly similar to UniRef100_Q9FPM2 Cluster: Glutathione S-transferase; n=2; Arabidopsis thaliana|Rep: Glutathione S-transferase - Arabidopsis thaliana (Mouse-ear cress), partial (18%)

coding gene

psRNATarget[Detail]

TC3675

ncRNA:	19	CAAGUUCUUUCG-ACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|-\|\|\|\|\|\|\|
targets:	122	GUUCAAGAAAGCCUGUGGAA	141

homologue to UniRef100_A7R1I7 Cluster: Chromosome undetermined scaffold_358, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome undetermined scaffold_358, whole genome shotgun sequence - Vitis vinifera (Grape), partial (9%)

coding gene

psRNATarget[Detail]

TC4538

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	647	CAGAUCAAGAAAGCUGAGGGA	667

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (96%)

coding gene

psRNATarget[Detail]

TC5527

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	697	CAGAUCAAGAAAGCUGAGGGA	717

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (94%)

coding gene

psRNATarget[Detail]

TC5787

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	594	CAGAUCAAGAAAGCUGAGGGA	614

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), complete

coding gene

psRNATarget[Detail]

TC9490

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|
targets:	616	CAGAUCAAGAAAGCUGAGGGA	636

homologue to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (98%)

coding gene

psRNATarget[Detail]

TC9832

ncRNA:	21	GUCAAGUUCUUUCGACACCUU	1
		\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=
targets:	758	CAGAUCAAGAAAGCUGAGGAG	778

similar to UniRef100_Q6UNT3 Cluster: Hypersensitive-induced response protein; n=1; Cucumis sativus|Rep: Hypersensitive-induced response protein - Cucumis sativus (Cucumber), partial (42%)

coding gene

psRNATarget[Detail]