Stem-loop sequence rno-mir-485

Accession

MI0003549 (change log)

Description

Rattus norvegicus miR-485 stem-loop

Gene family

MIPF0000201; mir-485

Literature search

8 open access papers mention rno-mir-485
(45 sentences)

Stem-loop

         u         cu       -    a    auuc 
5' gauacu ggagagagg  ggccgug auga uucg    a
   |||||| |||||||||  ||||||| |||| ||||    u
3' cuguga cuucucucc  ucggcac uacu gagc    c
         u         uc       a    -    aaau 

Deep sequencing

64473 reads, 191 reads per million, 385 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133885299-133885377 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-485

• rno-mir-381: chr6: 133876615-133876675 [+]
• rno-mir-487b: chr6: 133877124-133877205 [+]
• rno-mir-3576: chr6: 133877812-133877926 [-]
• rno-mir-539: chr6: 133877832-133877907 [+]
• rno-mir-6331: chr6: 133878578-133878700 [+]
• rno-mir-544: chr6: 133879169-133879246 [+]
• rno-mir-3592: chr6: 133884161-133884276 [-]
• rno-mir-382: chr6: 133884178-133884257 [+]
• rno-mir-134: chr6: 133884547-133884619 [+]
• rno-mir-668: chr6: 133885141-133885208 [+]
• rno-mir-485: chr6: 133885299-133885377 [+]
• rno-mir-154: chr6: 133888586-133888669 [+]
• rno-mir-496: chr6: 133889283-133889361 [+]
• rno-mir-377: chr6: 133890690-133890761 [+]
• rno-mir-541: chr6: 133892655-133892744 [+]
• rno-mir-409b: chr6: 133893418-133893497 [-]
• rno-mir-409a: chr6: 133893419-133893495 [+]
• rno-mir-412: chr6: 133893571-133893640 [+]
• rno-mir-3578: chr6: 133893672-133893788 [-]
• rno-mir-369: chr6: 133893693-133893771 [+]
• rno-mir-410: chr6: 133893997-133894072 [+]

Database links

• EntrezGene:Mir485
• miRBase Tracker:MI0003549

Mature sequence rno-miR-485-5p

• Accession: MIMAT0003203
• Previous IDs: rno-miR-485
• Sequence: 12 - agaggcuggccgugaugaauuc - 33
• Deep sequencing: 46510 reads, 337 experiments
• Evidence: experimental; cloned [2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-485-5p
  • miRDB:rno-miR-485-5p
  • microrna.org:rno-miR-485-5p

Mature sequence rno-miR-485-3p

• Accession: MIMAT0017222
• Previous IDs: rno-miR-485*
• Sequence: 51 - cauacacggcucuccucucuuc - 72
• Deep sequencing: 17905 reads, 342 experiments
• Evidence: experimental; SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-485-3p
  • miRDB:rno-miR-485-3p

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: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).
3. 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).