Stem-loop sequence rno-mir-494

Accession

MI0003542 (change log)

Description

Rattus norvegicus miR-494 stem-loop

Gene family

MIPF0000018; mir-154

Literature search

23 open access papers mention rno-mir-494
(346 sentences)

Stem-loop

   u      u            gu      -   c   -  uuu 
5'  gauacu gaaggagagguu  ccgugu ugu uuc uc   a
    |||||| ||||||||||||  |||||| ||| ||| ||   u
3'  cuauga uuuuuucuccaa  ggcaca aca aag ag   u
   a      -            ag      u   -   u  uau 

Deep sequencing

4496 reads, 3.43 reads per million, 321 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133864370-133864452 [+]
• Overlapping transcripts:

  sense

  ENSRNOT00000054367 ; Mir494-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-494

• rno-mir-379: chr6: 133857700-133857784 [+]
• rno-mir-411: chr6: 133858849-133858924 [+]
• rno-mir-299b: chr6: 133859295-133859412 [-]
• rno-mir-299a: chr6: 133859324-133859386 [+]
• rno-mir-3579: chr6: 133860473-133860585 [-]
• rno-mir-380: chr6: 133860490-133860566 [+]
• rno-mir-323: chr6: 133861199-133861284 [+]
• rno-mir-758: chr6: 133861498-133861575 [+]
• rno-mir-329: chr6: 133862168-133862264 [+]
• rno-mir-494: chr6: 133864370-133864452 [+]
• rno-mir-679: chr6: 133864564-133864700 [+]
• rno-mir-1193: chr6: 133864698-133864817 [+]
• rno-mir-666: chr6: 133866523-133866621 [+]
• rno-mir-543: chr6: 133866660-133866739 [+]
• rno-mir-495: chr6: 133868288-133868367 [+]
• rno-mir-667: chr6: 133869570-133869661 [+]
• rno-mir-376c: chr6: 133872439-133872522 [+]
• rno-mir-376b: chr6: 133873095-133873180 [+]
• rno-mir-3595: chr6: 133873587-133873706 [-]
• rno-mir-376a: chr6: 133873605-133873686 [+]
• rno-mir-300: chr6: 133874152-133874230 [+]

Database links

• EntrezGene:Mir494
• miRBase Tracker:MI0003542

Mature sequence rno-miR-494-5p

• Accession: MIMAT0017218
• Previous IDs: rno-miR-494*
• Sequence: 16 - agguuguccguguugucuucuc - 37
• Deep sequencing: 294 reads, 105 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-494-5p
  • miRDB:rno-miR-494-5p

Mature sequence rno-miR-494-3p

• Accession: MIMAT0003193
• Previous IDs: rno-miR-494
• Sequence: 49 - ugaaacauacacgggaaaccucu - 71
• Deep sequencing: 4202 reads, 313 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-494-3p
  • miRDB:rno-miR-494-3p
  • microrna.org:rno-miR-494-3p

References

1. PMID:16274478 "Identification of clustered microRNAs using an ab initio prediction method" Sewer A, Paul N, Landgraf P, Aravin A, Pfeffer S, Brownstein MJ, Tuschl T, van Nimwegen E, Zavolan M BMC Bioinformatics. 6:267(2005).
2. 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).