ABOUT THIS RECORDspecies: Ciona intestinalis
miRNA family: mir-34
source: miRBase, original name: cin-mir-34 (MI0007158)
Taxonomy by NCBI:
Ciona intestinalis Ciona Cionidae Phlebobranchia Enterogona Ascidiacea Tunicata Chordata Deuterostomia Coelomata Bilateria Eumetazoa Metazoa Fungi/Metazoa group Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA AGGCAGTGTAGTTAGCTAGTTG miRNA* ACTGCTTTTTGCACTACCACG mismatches: 4 bulges: 1 |
pre-miRNA
TTTCACGTGATTCTGAGGCAGTGTAGTTAGCTAGTTGTTTTCTTGCCGAGATGGACTTGCATCCCGAACGGTTTATTTCGAACAACTGCTTTTTGCACTA
CCACGGAAATCACTTGACT
dot-bracket secondary structure
..(((.(((((((((.((.(((((((..(((.(((((((.......(((((((((((..(.....)...)))))))))))))))))))))..))))))).
)).))).)))))).)))..
SIMILARITIES
MORE
miRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Northern, Solexa
deep sequencing data evidence
references
[1] Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T, BMC Genomics. 8:445(2007)., "Computational prediction and experimental validation of Ciona intestinalis microRNA genes"
[2] Hendrix D, Levine M, Shi W, Genome Biol. 11:R39(2010)., "miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data"
[3] Fu X, Adamski M, Thompson EM, Mol Biol Evol. 25:1067-1080(2008)., "Altered miRNA repertoire in the simplified chordate, Oikopleura dioica"
TTTCACGTGATTCTGAGGCAGTGTAGTTAGCTAGTTGTTTTCTTGCCGAGATGGACTTGCATCCCGAACGGTTTATTTCGAACAACTGCTTTTTGCACTA
CCACGGAAATCACTTGACT
dot-bracket secondary structure
..(((.(((((((((.((.(((((((..(((.(((((((.......(((((((((((..(.....)...)))))))))))))))))))))..))))))).
)).))).)))))).)))..
SIMILARITIES| miRBase csa-mir-34: 7e-18 PMRD no hits microPC no hits | UniProt no hits RFAM no hits |
MOREmiRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Northern, Solexa
deep sequencing data evidence
references
[1] Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T, BMC Genomics. 8:445(2007)., "Computational prediction and experimental validation of Ciona intestinalis microRNA genes"
[2] Hendrix D, Levine M, Shi W, Genome Biol. 11:R39(2010)., "miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data"
[3] Fu X, Adamski M, Thompson EM, Mol Biol Evol. 25:1067-1080(2008)., "Altered miRNA repertoire in the simplified chordate, Oikopleura dioica"
