ABOUT THIS RECORDspecies: Sorghum bicolor
miRNA family: MIR172
source: miRBase, original name: sbi-MIR172b (MI0001501)
Taxonomy by NCBI:
Sorghum bicolor Sorghum Andropogoneae Panicoideae PACCAD clade Poaceae Poales commelinids Liliopsida Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA GGAATCTTGATGATGCTGCA miRNA* TGGCATCATCAAGATTCACA mismatches: 4 bulges: 0 |
pre-miRNA
GCGTGGCATCATCAAGATTCACACACTGCTTGCAAATGCATACATGCATCTCTGCCGCCTTCTTTGCCTGCCATTAATAGCAGTTTTACTACATGTTTTA
GCTGCTGCTGCATCATATATGCCTCTGTGAATATATATGTGTATGTGTGGGAATCTTGATGATGCTGCAT
dot-bracket secondary structure
..(..(((((((((((((((.(((((.((..(((((((((....)))))..............))))..))......((((((((..((.....))...)
))))))).((((.((((((((..........)))))))))))).))))).)))))))))))))))..)..
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
references
[1] Maher C, Timmermans M, Stein L, Ware D, Proc IEEE CSB :718-723(2004)., "Identifying microRNAs in plant genomes"
[2] Bedell JA, Budiman MA, Nunberg A, Citek RW, Robbins D, Jones J, Flick E, Rholfing T, Fries J, Bradford K, McMenamy J, Smith M, Holeman H, Roe BA, Wiley G, Korf IF, Rabinowicz PD, Lakey N, McCombie WR, Jeddeloh JA, Martienssen RA, PLoS Biol. 3:e13(2005)., "Sorghum genome sequencing by methylation filtration"
GCGTGGCATCATCAAGATTCACACACTGCTTGCAAATGCATACATGCATCTCTGCCGCCTTCTTTGCCTGCCATTAATAGCAGTTTTACTACATGTTTTA
GCTGCTGCTGCATCATATATGCCTCTGTGAATATATATGTGTATGTGTGGGAATCTTGATGATGCTGCAT
dot-bracket secondary structure
..(..(((((((((((((((.(((((.((..(((((((((....)))))..............))))..))......((((((((..((.....))...)
))))))).((((.((((((((..........)))))))))))).))))).)))))))))))))))..)..
SIMILARITIES| miRBase zma-MIR172e: 6e-16 PMRD sbi-miR172b: 2e-93 microPC miR172: 0.000009 | UniProt no hits RFAM mir-172: 3e-92 |
Identical with: sbi-miR172b from PMRD (MNEST054464) |
MOREmiRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
references
[1] Maher C, Timmermans M, Stein L, Ware D, Proc IEEE CSB :718-723(2004)., "Identifying microRNAs in plant genomes"
[2] Bedell JA, Budiman MA, Nunberg A, Citek RW, Robbins D, Jones J, Flick E, Rholfing T, Fries J, Bradford K, McMenamy J, Smith M, Holeman H, Roe BA, Wiley G, Korf IF, Rabinowicz PD, Lakey N, McCombie WR, Jeddeloh JA, Martienssen RA, PLoS Biol. 3:e13(2005)., "Sorghum genome sequencing by methylation filtration"
