Stem-loop sequence kshv-mir-K12-12

Accession

MI0004987 (change log)

Description

Kaposi sarcoma-associated herpesvirus miR-K12-12 stem-loop

Stem-loop

       -  c      cg            c    a      u   cauua 
5' gaug gc ggcacg  gugucaaccagg cacc uuccuc ccg     a
   |||| || ||||||  |||||||||||| |||| |||||| |||      
3' cuac cg ccgugu  cacaguuggucc gugg aggggg ggc     a
       g  -      aa            c    g      u   ucacg 

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (EMBL:U75698.1): KSU75698: 117674-117771 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from kshv-mir-K12-12

• kshv-mir-K12-1: KSU75698: 121847-121913 [-]
• kshv-miR-K12-2: KSU75698: 121674-121764 [-]
• kshv-mir-K12-3: KSU75698: 121544-121613 [-]
• kshv-mir-K12-4: KSU75698: 121413-121482 [-]
• kshv-mir-K12-5: KSU75698: 121263-121332 [-]
• kshv-mir-K12-6: KSU75698: 120761-120822 [-]
• kshv-mir-K12-11: KSU75698: 120576-120646 [-]
• kshv-mir-K12-7: KSU75698: 120355-120426 [-]
• kshv-mir-K12-8: KSU75698: 119943-120012 [-]
• kshv-mir-K12-9: KSU75698: 119300-119365 [-]
• kshv-mir-K12-10a: KSU75698: 117967-118036 [-]
• kshv-mir-K12-12: KSU75698: 117674-117771 [-]

Database links

• miRBase Tracker:MI0004987

Mature sequence kshv-miR-K12-12-5p

• Accession: MIMAT0003712
• Previous IDs: kshv-miR-K12;kshv-miR-K12-12;kshv-miR-K12-12*
• Sequence: 21 - aaccaggccaccauuccucuccg - 43
• Evidence: experimental; array [1], Northern [1], Illumina [2], SOLiD [3]

Mature sequence kshv-miR-K12-12-3p

• Accession: MIMAT0015238
• Previous IDs: kshv-miR-K12-12*;kshv-miR-K12-12
• Sequence: 59 - ugggggagggugcccugguuga - 80
• Evidence: experimental; Illumina [2], SOLiD [3]

References

1. PMID:16540699 "A combined computational and microarray-based approach identifies novel microRNAs encoded by human gamma-herpesviruses" Grundhoff A, Sullivan CS, Ganem D RNA. 12:733-750(2006).
2. PMID: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. 84:695-703(2010).
3. PMID: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. 16:1540-1558(2010).