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BaseInfo

ncRNA ID bra-miR172d-3p
Species Brassica rapa
Class miRNA
Genome position chrA3:4762900-4762994 [-]
Reference genome Brapa_1.1
Source miRBase
Length 21
Mature sequence(if miRNA) 10 - GGAAUCUUGAUGAUGCUGCAU - 30
Stem-loop(if miRNA)        A                     A      A  U  UUUU
UAGUUGC GAUGCAGCAUCAUUAAGAUUC CAAGAG UG GG    C
||||||| ||||||||||||||||||||| |||||| || ||    U
AUCAACG CUACGUCGUAGUAGUUCUAAG GUUCUC GC CU    U
       A                     G      C  U  UUUG
Stem-loop sequence UAGUUGCAGAUGCAGCAUCAUUAAGAUUCACAAGAGAUGUGGUUUUCUUGUUUUCUCGCCUCUUGGGAAUCUUGAUGAUGCUGCAUCAGCAACUA

Targets Info

Target Acc Alignment Exception Target Description Target Gene Name Target Type Method
XM_009128446.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  ||||||||||||||||||||*
targets:55   AUGCAGCAUCAUCAAGAUUCA   75

1.0 PREDICTED: Brassica rapa uncharacterized LOC103851575 (LOC103851575), mRNA uncharacterized LOC103851575(LOC103851575) coding protein psRNATarget
XM_009117948.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *|||||||||||||=||||||
targets:1117   UUGCAGCAUCAUCAGGAUUCC   1137

1.5 PREDICTED: Brassica rapa AP2-like ethylene-responsive transcription factor SMZ (LOC103841411), mRNA AP2-like ethylene-responsive transcription factor SMZ(LOC103841411) coding protein psRNATarget
XM_009122283.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  ||||||||||||||=|||||=
targets:1544   AUGCAGCAUCAUCAGGAUUCU   1564

2.5 PREDICTED: Brassica rapa AP2-like ethylene-responsive transcription factor TOE2 (LOC103845425), transcript variant X3, mRNA AP2-like ethylene-responsive transcription factor TOE2(LOC103845425) coding protein psRNATarget
XM_009128374.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  ||||||||||||||=|||||=
targets:1434   AUGCAGCAUCAUCAGGAUUCU   1454

2.5 PREDICTED: Brassica rapa AP2-like ethylene-responsive transcription factor TOE2 (LOC103851522), mRNA AP2-like ethylene-responsive transcription factor TOE2(LOC103851522) coding protein psRNATarget
XM_009122282.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  ||||||||||||||=|||||=
targets:1345   AUGCAGCAUCAUCAGGAUUCU   1365

2.5 PREDICTED: Brassica rapa AP2-like ethylene-responsive transcription factor TOE2 (LOC103845425), transcript variant X2, mRNA AP2-like ethylene-responsive transcription factor TOE2(LOC103845425) coding protein psRNATarget
XM_009122281.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  ||||||||||||||=|||||=
targets:1421   AUGCAGCAUCAUCAGGAUUCU   1441

2.5 PREDICTED: Brassica rapa AP2-like ethylene-responsive transcription factor TOE2 (LOC103845425), transcript variant X1, mRNA AP2-like ethylene-responsive transcription factor TOE2(LOC103845425) coding protein psRNATarget
JX041886.1
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *|||||||||||||=|||||=
targets:1184   CUGCAGCAUCAUCAGGAUUCU   1204

2.5 Brassica rapa cultivar Ragini AP2 variant 1 mRNA, complete cds NA coding protein psRNATarget
XM_009139935.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *|||||||||||||=|||||=
targets:1379   CUGCAGCAUCAUCAGGAUUCU   1399

2.5 PREDICTED: Brassica rapa floral homeotic protein APETALA 2 (LOC103862143), transcript variant X2, mRNA floral homeotic protein APETALA 2(LOC103862143) coding protein psRNATarget
XM_009139876.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *|||||||||||||=|||||=
targets:1382   CUGCAGCAUCAUCAGGAUUCU   1402

2.5 PREDICTED: Brassica rapa floral homeotic protein APETALA 2 (LOC103862143), transcript variant X1, mRNA floral homeotic protein APETALA 2(LOC103862143) coding protein psRNATarget
XM_009140231.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *|||||||||||||=|||||=
targets:1361   CUGCAGCAUCAUCAGGAUUCU   1381

2.5 PREDICTED: Brassica rapa floral homeotic protein APETALA 2 (LOC103862524), transcript variant X1, mRNA floral homeotic protein APETALA 2(LOC103862524) coding protein psRNATarget
XM_009135623.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  **||||||||||||=|||||=
targets:1422   CAGCAGCAUCAUCAGGAUUCU   1442

2.5 PREDICTED: Brassica rapa ethylene-responsive transcription factor RAP2-7-like (LOC103858289), mRNA ethylene-responsive transcription factor RAP2-7-like(LOC103858289) coding protein psRNATarget
XM_009105450.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  **||||||||||||=|||||=
targets:1491   CAGCAGCAUCAUCAGGAUUCU   1511

2.5 PREDICTED: Brassica rapa ethylene-responsive transcription factor RAP2-7 (LOC103829752), transcript variant X2, mRNA ethylene-responsive transcription factor RAP2-7(LOC103829752) coding protein psRNATarget
XM_009105449.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  **||||||||||||=|||||=
targets:1536   CAGCAGCAUCAUCAGGAUUCU   1556

2.5 PREDICTED: Brassica rapa ethylene-responsive transcription factor RAP2-7 (LOC103829752), transcript variant X1, mRNA ethylene-responsive transcription factor RAP2-7(LOC103829752) coding protein psRNATarget
XM_009135190.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  **|||||*|||||||||*|||
targets:459   CGGCAGCUUCAUCAAGAAUCC   479

2.5 PREDICTED: Brassica rapa WEB family protein At2g40480-like (LOC103857936), mRNA WEB family protein At2g40480-like(LOC103857936) coding protein psRNATarget
XM_009145043.2
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *||=|*||||||||||||||=
targets:198   UUGUAACAUCAUCAAGAUUCU   218

3.0 PREDICTED: Brassica rapa ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic-like (LOC103867016), transcript variant X2, mRNA ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic-like(LOC103867016) coding protein psRNATarget
XM_009145042.1
ncRNA:21   UACGUCGUAGUAGUUCUAAGG   1
  *||=|*||||||||||||||=
targets:221   UUGUAACAUCAUCAAGAUUCU   241

3.0 PREDICTED: Brassica rapa ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic-like (LOC103867016), transcript variant X1, mRNA ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic-like(LOC103867016) coding protein psRNATarget

Reference

1 PMID:24559317
"Identification of novel and conserved miRNAs involved in pollen development in Brassica campestris ssp. chinensis by high-throughput sequencing and degradome analysis";
Jiang J, Lv M, Liang Y, Ma Z, Cao J;
BMC Genomics. 15:146(2014).
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