Stem-loop sequence rno-mir-434-1

Accession

MI0006147 (change log)

Previous IDs

rno-mir-434

Description

Rattus norvegicus miR-434-1 stem-loop

Gene family

MIPF0000439; mir-434

Literature search

7 open access papers mention rno-mir-434-1
(86 sentences)

Stem-loop

   -   ug     -c  c    c c      ug      -u u 
5'  guu  aacca  ag ucga u augguu  aaccau  g c
    |||  |||||  || |||| | ||||||  ||||||  | a
3'  uaa  uuggu  uc agcu a uaccaa  uuggug  c a
   c   gu     cc  -    c c      gu      cu a 

Deep sequencing

5271345 reads, 3.49e+03 reads per million, 487 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133715378-133715458 [+]
• Overlapping transcripts:

  antisense

  ENSRNOT00000062197 ; Mir3543-201; exon 1

  ENSRNOT00000072399 ; rno-mir-3543-201; exon 4

Clustered miRNAs

< 10kb from rno-mir-434-1

• rno-mir-337: chr6: 133705920-133706016 [+]
• rno-mir-3544: chr6: 133705932-133706019 [-]
• rno-mir-540: chr6: 133706202-133706285 [+]
• rno-mir-665: chr6: 133706457-133706550 [+]
• rno-mir-431: chr6: 133711425-133711538 [+]
• rno-mir-433: chr6: 133712334-133712426 [+]
• rno-mir-127: chr6: 133713430-133713526 [+]
• rno-mir-3543-1: chr6: 133715345-133715459 [-]
• rno-mir-434-1: chr6: 133715378-133715458 [+]
• rno-mir-3543-2: chr6: 133716215-133716329 [-]
• rno-mir-434-2: chr6: 133716248-133716328 [+]
• rno-mir-136: chr6: 133716761-133716842 [+]

Database links

• EntrezGene:Mir434
• miRBase Tracker:MI0006147

Mature sequence rno-miR-434-5p

• Accession: MIMAT0017307
• Previous IDs: rno-miR-434*
• Sequence: 12 - agcucgacucaugguuugaacca - 34
• Deep sequencing: 476028 reads, 426 experiments
• Evidence: experimental; SOLiD [2]

Mature sequence rno-miR-434-3p

• Accession: MIMAT0005315
• Previous IDs: rno-miR-434
• Sequence: 50 - uuugaaccaucacucgacuccu - 71
• Deep sequencing: 10066396 reads, 486 experiments
• Evidence: experimental; cloned [1], SOLiD [2]

References

1. 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).
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).