gi_545778205_gb_U000_146

cmsearch-Rfam

Family :

mir-399

Id:

RF00445

Type:

Gene; miRNA;

Taxonomy:

Eukaryota;

Ontology:

GO:0035195 gene silencing by miRNARF00445

Description:

mir-399 was identified in both Arabidopsis thaliana and Oryza sativa computationally and was later experimentally verified.
mir-399 is thought to target mRNAs coding for a phosphatase transporter [1]. The mature sequence
is excised from the 3' arm of the hairpin.

Score:

22.8

E-value:

0.0084

From sequence:

1300710

To sequence:

1300871

Alignments:

                                            v  v            vvvvvvv                                      vvvvvvv NC
                               ::::<<<<<-<<<<<<<<<--<<<<--<<<<<<<<<________________________________~~~~~~>>>>>>> CS
               RF00445       1 augUGcAUuACaGGGCaAuUUCuCCuUUGGCAggggugaAguaguucgugCUuauuAgaggAUGcaug*[15]*ccccUGC 90     
                                  U::AUUA :  GC AUUUC:C:+ U   A  G+  AA +AG + +     A       AUGC+U              
  gi_545778205_gb_U000 1300710 UGUUAAAUUAUUGUGC-AUUUCACUACUGGAACUGU--AAUCAGAAAAGAUAGAC------AUGCUUA*[73]*-----AA 1300843
                               ****************.***********74444433..34444432222222222......2222222...8.......23 PP

                                          v  v              NC
                               >>-->>>>->>>>>>>>>->>>>>:::: CS
               RF00445      91 CAAAGGaGAaUuGCCCuGCaAUgCauuu 118    
                                AAA:G:GAAUUGC  : CAAU::++++
  gi_545778205_gb_U000 1300844 UAAAAGAGAAUUGCUUAACAAUUUUGCA 1300871
                               59************************** PP

RNAfold
>gi_545778205_gb_U000_146
GUUAAAUUAUUGUGCAUUUCACUACUGGAACUGUAAUCAGAAAAGAUAGA
CAUGCUUAGCCAAUCUCUAUUUGAUUGAAUUGAAAGAUGUUUGUUAAGGC
AUGGAUGCAAGCUAUAGAUUCUGAUACGGUCAAUAAAAGAGAAUUGCUUA
ACAAUUUUGCA
((.(((((.(((.(((.(((.((..((..((((((.((((((...((((.((((((((((.(((.(((.((((((...))))))))).))).))))).)))))........))))...))))))))))))...))..)).))).))).))).))))).)). (-33.10)

Length sequence

: 161

Length match:

160