Stem-loop sequence cin-mir-4001a-2

Accession MI0015513
Description Ciona intestinalis miR-4001a-2 stem-loop
Stem-loop 
ug      a      ca     ug 
  gaacuu uacgaa  ggcug  c
  |||||| ||||||  |||||  u
  cuugaa augcuu  ccgac  g
aa      c      aa     uu
Get sequence
Genome context
Coordinates (JGI2) Overlapping transcripts
7q: 5401049-5401099 [-]
antisense
ENSCINT00000015751 ; F6SJL3_CIOIN; intron 20
ENSCINT00000015772 ; F6SIN5_CIOIN; intron 21
ENSCINT00000015751 ; F6SJL3_CIOIN; intron 21
ENSCINT00000015758 ; F6SJH3_CIOIN; intron 22
ENSCINT00000015772 ; F6SIN5_CIOIN; intron 22
ENSCINT00000015758 ; F6SJH3_CIOIN; intron 23
7q: 5411381-5411431 [-]
antisense
ENSCINT00000015751 ; F6SJL3_CIOIN; intron 20
ENSCINT00000015772 ; F6SIN5_CIOIN; intron 21
ENSCINT00000015751 ; F6SJL3_CIOIN; intron 21
ENSCINT00000015758 ; F6SJH3_CIOIN; intron 22
ENSCINT00000015772 ; F6SIN5_CIOIN; intron 22
ENSCINT00000015758 ; F6SJH3_CIOIN; intron 23
Clustered miRNAs
< 10kb from cin-mir-4001a-2
cin-mir-4006b 7q: 5412601-5412650 [-]
cin-mir-4006e 7q: 5412237-5412283 [-]
cin-mir-4001a-1 7q: 5411814-5411865 [-]
cin-mir-4001a-2 7q: 5411381-5411431 [-]
cin-mir-4002 7q: 5411380-5411432 [+]
cin-mir-4001h 7q: 5411022-5411071 [-]
cin-mir-4000a-2 7q: 5410807-5410861 [-]
cin-mir-4006a-2 7q: 5410620-5410672 [-]
cin-mir-4006a-3 7q: 5410518-5410568 [-]
cin-mir-4006a-1 7q: 5410360-5410408 [-]
cin-mir-4006e 7q: 5403043-5403089 [-]
cin-mir-4001a-1 7q: 5402621-5402672 [-]
cin-mir-4006b 7q: 5402317-5402366 [-]
cin-mir-4000c 7q: 5402053-5402104 [-]
cin-mir-4006e 7q: 5401862-5401908 [-]
cin-mir-4000b-2 7q: 5401574-5401625 [-]
cin-mir-4001a-1 7q: 5401442-5401493 [-]
cin-mir-4000b-1 7q: 5401203-5401256 [-]
cin-mir-4001a-2 7q: 5401049-5401099 [-]
cin-mir-4002 7q: 5401048-5401100 [+]
cin-mir-4000d 7q: 5400845-5400896 [-]
cin-mir-4001h 7q: 5400692-5400741 [-]
cin-mir-4006a-3 7q: 5400214-5400264 [-]
cin-mir-4006a-1 7q: 5400066-5400114 [-]
cin-mir-4000a-1 7q: 5398797-5398851 [-]
Database links

Mature sequence cin-miR-4001a-5p

Accession MIMAT0016444
Sequence

1 -  

uggaacuuauacgaacaggc

 - 20

Get sequence
Evidence experimental; Solexa [1]

Mature sequence cin-miR-4001a-2-3p

Accession MIMAT0016974
Sequence

32 -  

gccaauucguacaaguucaa

 - 51

Get sequence
Evidence experimental; Solexa [1]

References

1
PMID:20370911 "miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data" Hendrix D, Levine M, Shi W Genome Biol. 11:R39(2010).