ABOUT THIS RECORDspecies: Sus scrofa
miRNA family: mir-28
source: miRBase, original name: ssc-mir-28 (MI0002430)
Taxonomy by NCBI:
Sus scrofa Sus Suidae Suina Cetartiodactyla Laurasiatheria Eutheria Theria Mammalia Amniota Tetrapoda Sarcopterygii Euteleostomi Teleostomi Gnathostomata Vertebrata Craniata Chordata Deuterostomia Coelomata Bilateria Eumetazoa Metazoa Fungi/Metazoa group Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA CACTAGATTGTGAGCTCCTGGA miRNA* AAGGAGCTCACACTCTATTGAG mismatches: 3 bulges: 0 |
pre-miRNA
GGTCCTTGCCCTCAAGGAGCTCACACTCTATTGAGTTGCCTTTCTGTCTTCCCCACTAGATTGTGAGCTCCTGGAGGGCAGGCACT
dot-bracket secondary structure
(((.(((((((((.(((((((((((.((((.((....................)).)))).))))))))))).))))))))).)))
SIMILARITIES
MORE
miRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Solexa
deep sequencing data evidence
references
[1] Wernersson R, Schierup MH, Jorgensen FG, Gorodkin J, Panitz F, Staerfeldt HH, Christensen OF, Mailund T, Hornshoj H, Klein A, Wang J, Liu B, Hu S, Dong W, Li W, Wong GK, Yu J, Wang J, Bendixen C, Fredholm M, Brunak S, Yang H, Bolund L, BMC Genomics. 6:70(2005)., "Pigs in sequence space: a 0.66X coverage pig genome survey based on shotgun sequencing"
[2] Nielsen M, Hansen JH, Hedegaard J, Nielsen RO, Panitz F, Bendixen C, Thomsen B, Anim Genet. 41:159-168(2010)., "MicroRNA identity and abundance in porcine skeletal muscles determined by deep sequencing"
GGTCCTTGCCCTCAAGGAGCTCACACTCTATTGAGTTGCCTTTCTGTCTTCCCCACTAGATTGTGAGCTCCTGGAGGGCAGGCACT
dot-bracket secondary structure
(((.(((((((((.(((((((((((.((((.((....................)).)))).))))))))))).))))))))).)))
SIMILARITIES| miRBase ssc-mir-28: 1e-43 PMRD no hits microPC no hits | UniProt no hits RFAM mir-28: 3e-35 |
MOREmiRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Solexa
deep sequencing data evidence
references
[1] Wernersson R, Schierup MH, Jorgensen FG, Gorodkin J, Panitz F, Staerfeldt HH, Christensen OF, Mailund T, Hornshoj H, Klein A, Wang J, Liu B, Hu S, Dong W, Li W, Wong GK, Yu J, Wang J, Bendixen C, Fredholm M, Brunak S, Yang H, Bolund L, BMC Genomics. 6:70(2005)., "Pigs in sequence space: a 0.66X coverage pig genome survey based on shotgun sequencing"
[2] Nielsen M, Hansen JH, Hedegaard J, Nielsen RO, Panitz F, Bendixen C, Thomsen B, Anim Genet. 41:159-168(2010)., "MicroRNA identity and abundance in porcine skeletal muscles determined by deep sequencing"
