Stem-loop sequence rno-let-7d

AccessionMI0000601 (change log)
DescriptionRattus norvegicus let-7d stem-loop
Gene family MIPF0000002; let-7
Community annotation

This text is a summary paragraph taken from the Wikipedia entry entitled let-7_microRNA_precursor. miRBase and Rfam are facilitating community annotation of microRNA families and entries in Wikipedia. Read more ...

The Let-7 microRNA precursor was identified from a study of developmental timing in C. elegans, and was later shown to be part of a much larger class of non-coding RNAs termed microRNAs. miR-98 microRNA precursor from human is a let-7 family member. Let-7 miRNAs have now been predicted or experimentally confirmed in a wide range of species (MIPF0000002). miRNAs are initially transcribed in long transcripts (up to several hundred nucleotides) called primary miRNAs (pri-miRNAs), which are processed in the nucleus by Drosha and Pasha to hairpin structures of about ~70 nucleotide. These precursors (pre-miRNAs) are exported to the cytoplasm by exportin5, where they are subsequently processed by the enzyme Dicer to a ~22 nucleotide mature miRNA. The involvement of Dicer in miRNA processing demonstrates a relationship with the phenomenon of RNA interference.

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   u    u       a              c      -------uua         
5'  gggc ccuagga gagguaguagguug auaguu          gggcagag 
    |||| ||||||| |||||||||||||| ||||||          ||||||| a
3'  uccg ggauucu uuccgucguccagc uaucaa          cccguuuu 
   u    -       -              a      uugaggaaca         
Get sequence
Deep sequencing
93647 reads, 764 reads per million, 39 experiments
Confidence Annotation confidence: high
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Kim et al. cloned 40 new miRNAs from rat E18 primary cortical neurons, including the sequence identical to the miRNA cloned from the reverse strand of mouse let-7d (MI0000405), named let-7* [1]. The predicted precursor sequence from a newer assembly of the rat genome also contains the let-7d sequence in the 5' arm. The let-7d* sequence published in [1] had an extra 3' A residue, which conflicts with the sequence of the precursor shown here. The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies [4]. The ends of the miRNA may be offset with respect to previous annotations.

Genome context
Coordinates (Rnor_6.0; GCA_000001895.4) Overlapping transcripts
chr17: 16419980-16420077 [+]
Clustered miRNAs
< 10kb from rno-let-7d
rno-let-7a-1chr17: 16417853-16417946 [+]
rno-mir-3596dchr17: 16418217-16418313 [-]
rno-let-7f-1chr17: 16418221-16418309 [+]
rno-let-7dchr17: 16419980-16420077 [+]
rno-mir-3596bchr17: 16419981-16420075 [-]
Database links

Mature sequence rno-let-7d-5p

Accession MIMAT0000562
Previous IDsrno-let-7d

14 - 


 - 35

Get sequence
Deep sequencing71734 reads, 39 experiments
Evidence experimental; cloned [1-4], SOLiD [5]
Predicted targets

Mature sequence rno-let-7d-3p

Accession MIMAT0000563
Previous IDsrno-let-7d*

68 - 


 - 89

Get sequence
Deep sequencing21911 reads, 39 experiments
Evidence experimental; cloned [1,4], Northern [1], SOLiD [5]
Predicted targets


PMID:14691248 "Identification of many microRNAs that copurify with polyribosomes in mammalian neurons" Kim J, Krichevsky A, Grad Y, Hayes GD, Kosik KS, Church GM, Ruvkun G Proc Natl Acad Sci U S A. 101:360-365(2004).
PMID:15345052 "Microarray analysis of microRNA expression in the developing mammalian brain" Miska EA, Alvarez-Saavedra E, Townsend M, Yoshii A, Sestan N, Rakic P, Constantine-Paton M, Horvitz HR Genome Biol. 5:R68(2004).
PMID:17604727 "A mammalian microRNA expression atlas based on small RNA library sequencing" Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S, Foa R, Schliwka J, Fuchs U, Novosel A, Muller RU, Schermer B, Bissels U, Inman J, Phan Q, Chien M Cell. 129:1401-1414(2007).
PMID:20403161 "Small RNA expression and strain specificity in the rat" Linsen SE, de Wit E, de Bruijn E, Cuppen E BMC Genomics. 11:249(2010).