miRBase entry: kshv-mir-K12-10b

Stem-loop kshv-mir-K12-10b


Accession
MI0002473
Description
Kaposi sarcoma-associated herpesvirus kshv-mir-K12-10b precursor miRNA
Gene family
MIPF0000261; mir-K12-10


Sequence

cuggaggcuuggggcgauaccaccacucguuugucuguuggcgauUGGUGUUGUCCCCCCGAGUGGCcag
((((..((((((((.((((.(((((.(((((........))))).))))).)))).))))))))..))))

Structure
    ag        c    c     c     ugu 
cugg  gcuugggg gaua cacca ucguu   c
||||  |||||||| |||| ||||| |||||    
gacC  UGAGCCCC CUGU GUGGU agcgg   u
    GG        C    U     u     uug 


Annotation confidence Not enough data
Do you think this miRNA is real?
Comments
Cai et al. define the likely miRNA primary transcripts in [3].

Genome context
Unknown

Database links

Mature kshv-miR-K12-10b

Accession MIMAT0002180
Description Kaposi sarcoma-associated herpesvirus kshv-miR-K12-10b mature miRNA
Sequence 46 - UGGUGUUGUCCCCCCGAGUGGC - 67
Evidence experimental
cloned [1-2,4], Illumina [5], SOLiD [6]

References

  1. PubMed ID: 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 (2007) 129:1401-1414

  2. PubMed ID: 15800047
    Kaposi's sarcoma-associated herpesvirus expresses an array of viral microRNAs in latently infected cells
    "Cai X, Lu S, Zhang Z, Gonzalez CM, Damania B, Cullen BR"
    "Proc Natl Acad Sci U S A (2005) 102:5570-5575

  3. PubMed ID: 15782219
    Identification of microRNAs of the herpesvirus family
    "Pfeffer S, Sewer A, Lagos-Quintana M, Sheridan R, Sander C, Grasser FA, van Dyk LF, Ho CK, Shuman S, Chien M, Russo JJ, Ju J, Randall G, Lindenbach BD, Rice CM, Simon V, Ho DD, Zavolan M, Tuschl T"
    "Nat Methods (2005) 2:269-276

  4. PubMed ID: 16474131
    Transcriptional origin of Kaposi's sarcoma-associated herpesvirus microRNAs
    "Cai X, Cullen BR"
    "J Virol (2006) 80:2234-2242

  5. PubMed ID: 19889781
    In-depth analysis of Kaposi's sarcoma-associated herpesvirus microRNA expression provides insights into the mammalian microRNA-processing machinery
    "Umbach JL, Cullen BR"
    "J Virol (2010) 84:695-703

  6. PubMed ID: 20566670
    Small RNA profiling reveals antisense transcription throughout the KSHV genome and novel small RNAs
    "Lin YT, Kincaid RP, Arasappan D, Dowd SE, Hunicke-Smith SP, Sullivan CS"
    "RNA (2010) 16:1540-1558