Detail information of cpa-miR172a

Basic Info
Non-coding RNA IDcpa-miR172a
SpeciesCarica papaya
classmiRNA
Chromosome
Start Site (precursors if it is microRNA)
End Site (precursors if it is microRNA)
Strand
Length21
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-MIR172a]

GAGCAUCAUCAAGAUUCACAAAAUUAAACACAUUAGGGCUAGUAGUGUGGGGUUUGUGGUGGUGGGUGACGGUGAUGGCCCCUUCUGCUCUUUUUUUUUUCAGUGGUCCCGUUGCUUAUUUCACUGCAACACCCUUGGCUCUCUCUCUUUGAUUAUGGGAAUCUUGAUGAUGCUGCA

Secondary structure of stem-loop sequence

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

Mature sequence[cpa-miR172a]

GGGAAUCUUGAUGAUGCUGCA

Targets Info
target nameAlignmentExpectionTarget DescriptionTarget typeMethod
EX258175
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   |||||||||||||=||||||| 
 targets:671UGCAGCAUCAUCAGGAUUCCC691
0.5similar to UniRef100_A7PLE5 Cluster: Chromosome chr7 scaffold_20, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr7 scaffold_20, whole genome shotgun sequence - Vitis vinifera (Grape), partial (29%)coding genepsRNATarget[Detail]
EX264582
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   |||||||||||||=|||||=| 
 targets:530UGCAGCAUCAUCAGGAUUCUC550
1homologue to UniRef100_A7NZC0 Cluster: Chromosome chr6 scaffold_3, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr6 scaffold_3, whole genome shotgun sequence - Vitis vinifera (Grape), partial (31%)coding genepsRNATarget[Detail]
EX268576
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   |||||||||||||=|||||=| 
 targets:759UGCAGCAUCAUCAGGAUUCUC779
1similar to UniRef100_A7NZC0 Cluster: Chromosome chr6 scaffold_3, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr6 scaffold_3, whole genome shotgun sequence - Vitis vinifera (Grape), partial (47%)coding genepsRNATarget[Detail]
EX275796
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   |||||||||||||=|||||=| 
 targets:764UGCAGCAUCAUCAGGAUUCUC784
1homologue to UniRef100_A7NZC0 Cluster: Chromosome chr6 scaffold_3, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr6 scaffold_3, whole genome shotgun sequence - Vitis vinifera (Grape), partial (62%)coding genepsRNATarget[Detail]
EX283869
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   ||||||*|=*|||||||||=| 
 targets:804UGCAGCUUUUUCAAGAUUCUC824
3weakly similar to UniRef100_Q2V3K8 Cluster: Uncharacterized protein At4g08320.1; n=1; Arabidopsis thaliana|Rep: Uncharacterized protein At4g08320.1 - Arabidopsis thaliana (Mouse-ear cress), partial (13%)coding genepsRNATarget[Detail]
EX303000
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   ||||||||||||==|||||=| 
 targets:848UGCAGCAUCAUCGGGAUUCUC868
1.5similar to UniRef100_A4VYE3 Cluster: MutT/NudX family protein; n=2; Streptococcus suis|Rep: MutT/NudX family protein - Streptococcus suis (strain 05ZYH33), partial (11%)coding genepsRNATarget[Detail]
TC600
 ncRNA:21ACGUCGUAGUAGUUCUAAGGG1
   |||||||||||||=||||||| 
 targets:793UGCAGCAUCAUCAGGAUUCCC813
0.5homologue to UniRef100_A7PLE5 Cluster: Chromosome chr7 scaffold_20, whole genome shotgun sequence; n=1; Vitis vinifera|Rep: Chromosome chr7 scaffold_20, whole genome shotgun sequence - Vitis vinifera (Grape), partial (37%)coding genepsRNATarget[Detail]
 

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