miRBase entry: dme-mir-9b

Stem-loop dme-mir-9b


Accession
MI0000415
Description
Drosophila melanogaster dme-mir-9b precursor miRNA
Gene family
MIPF0000014; mir-9

Literature search
24 open access papers mention dme-mir-9b
(88 sentences)

Sequence

450113 reads, 5894 reads per million, 49 experiments
ugcauauuauuugcUCUUUGGUGAUUUUAGCUGUAUGguguuuauguauauuccaUAGAGCUUUAUUACCAAAAACCaaaugguuucugca
((((.((((((((...(((((((((...((((.(((((.((........)).))))).))))..)))))))))...))))))))...))))

Structure
    --u        cUC         UUU    G     u  uua 
ugca   auuauuug   UUUGGUGAU   AGCU UAUGg gu   u
||||   ||||||||   |||||||||   |||| ||||| ||    
acgu   ugguaaaC   AAACCAUUA   UCGA AUacc ua   g
    cuu        CAA         -UU    G     u  uau 


Annotation confidence High
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Comments
Lai et al. predicted this sequence based on conservation in D. pseudoobscura, but did not verify expression [2]. Aravin et al. describe identification and mapping of the 5' end of the excised sequence by cloning [1].

Genome context
chr2L: 16698744-16698834 [+]
Clustered miRNAs
3 other miRNAs are < 10 kb from dme-mir-9b
Name Accession Chromosome Start End Strand Confidence




Database links

Mature dme-miR-9b-5p

Accession MIMAT0000395
Description Drosophila melanogaster dme-miR-9b-5p mature miRNA
Sequence 15 - UCUUUGGUGAUUUUAGCUGUAUG - 37
Evidence experimental
cloned [1], 454 [3-4], Illumina [4]
Database links
Predicted targets

Mature dme-miR-9b-3p

Accession MIMAT0020829
Description Drosophila melanogaster dme-miR-9b-3p mature miRNA
Sequence 56 - UAGAGCUUUAUUACCAAAAACC - 77
Evidence not_experimental
Database links

References

  1. PubMed ID: 12919683
    The small RNA profile during Drosophila melanogaster development
    "Aravin AA, Lagos-Quintana M, Yalcin A, Zavolan M, Marks D, Snyder B, Gaasterland T, Meyer J, Tuschl T"
    "Dev Cell (2003) 5:337-350

  2. PubMed ID: 17989254
    Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
    "Ruby JG, Stark A, Johnston WK, Kellis M, Bartel DP, Lai EC"
    "Genome Res (2007) 17:1850-1864

  3. PubMed ID: 17989255
    Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes
    "Stark A, Kheradpour P, Parts L, Brennecke J, Hodges E, Hannon GJ, Kellis M"
    "Genome Res (2007) 17:1865-1879

  4. PubMed ID: 12844358
    Computational identification of Drosophila microRNA genes
    "Lai EC, Tomancak P, Williams RW, Rubin GM"
    "Genome Biol (2003) 4:R42