ABOUT THIS RECORDspecies: Ciona intestinalis
miRNA family: mir-200
source: miRBase, original name: cin-mir-200 (MI0007175)
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 TAATACTGCCTGGTAATGGTGA miRNA* ACCAACCACGTAGTATCGGA mismatches: 3 bulges: 2 |
pre-miRNA
TTCGTGCCAACCGAATCACCAACCACGTAGTATCGGAGCATTGTGTGTCTAATACTGCCTGGTAATGGTGATTGGGTGGATACGTA
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
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"
TTCGTGCCAACCGAATCACCAACCACGTAGTATCGGAGCATTGTGTGTCTAATACTGCCTGGTAATGGTGATTGGGTGGATACGTA
dot-bracket secondary structure
..(((((((.((.((((((((((((.(((((((..((.(((...)))))..))))))).))))..)))))))).))))).))))..
SIMILARITIES| miRBase cin-mir-3575: 3e-28 PMRD no hits microPC no hits | UniProt no hits RFAM mir-200: 2e-42 |
Identical with: cin-mir-3575 from miRBase (MNEST024869) |
MOREmiRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Northern, Solexa
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"
