Stem-loop sequence rno-mir-99b

Accession

MI0000884 (change log)

Description

Rattus norvegicus miR-99b stem-loop

Gene family

MIPF0000033; mir-10

Literature search

13 open access papers mention rno-mir-99b
(49 sentences)

Stem-loop

        cc         ac   c    c - -   c 
5' ggcac  acccguaga  cga cuug g g ggc u
   |||||  |||||||||  ||| |||| | | |||  
3' cugug  ugggugucu  gcu gaac c c ccg u
        cc         gu   c    a a g   c 

Deep sequencing

5755036 reads, 4.05e+03 reads per million, 506 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr1: 59704216-59704285 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-99b

• rno-mir-99b: chr1: 59704216-59704285 [+]
• rno-mir-3596c: chr1: 59704372-59704488 [-]
• rno-let-7e: chr1: 59704381-59704473 [+]
• rno-mir-125a: chr1: 59704827-59704911 [+]

Database links

• EntrezGene:Mir99b
• miRBase Tracker:MI0000884

Mature sequence rno-miR-99b-5p

• Accession: MIMAT0000821
• Previous IDs: rno-miR-99b
• Sequence: 7 - cacccguagaaccgaccuugcg - 28
• Deep sequencing: 5735141 reads, 505 experiments
• Evidence: experimental; cloned [1-4], Northern [1,3], SOLiD [5]
• Predicted targets:
  • TargetScanVert:rno-miR-99b-5p
  • miRDB:rno-miR-99b-5p
  • microrna.org:rno-miR-99b-5p

Mature sequence rno-miR-99b-3p

• Accession: MIMAT0004725
• Previous IDs: rno-miR-99b*
• Sequence: 45 - caagcucgugucuguggguccg - 66
• Deep sequencing: 19894 reads, 464 experiments
• Evidence: experimental; cloned [4], SOLiD [5]
• Predicted targets:
  • TargetScanVert:rno-miR-99b-3p
  • miRDB:rno-miR-99b-3p
  • microrna.org:rno-miR-99b-3p

References

1. 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).
2. 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).
3. PMID:16766679 "Identification and characterization of two novel classes of small RNAs in the mouse germline: retrotransposon-derived siRNAs in oocytes and germline small RNAs in testes" Watanabe T, Takeda A, Tsukiyama T, Mise K, Okuno T, Sasaki H, Minami N, Imai H Genes Dev. 20:1732-1743(2006).
4. 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).
5. 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).