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Table 1 microRNA/target pairs predicted by MovingTargets using the following strict targeting criteria: minimum 3 target sites, maximum dG of microRNA/target hybridization of -15 kcal/mole at RT for each target site, minimum 7 out of 8 consecutive base pairs in microRNA 5' end, maximum 1 G:U base pair in microRNA 5' region. Transcription factor targets are listed first followed by neural targets. Gene function and biological process are as given by FlyBase http://www.flybase.net, March 2004.

From: Prediction and verification of microRNA targets by MovingTargets, a highly adaptable prediction method

Target

miRNA

# target sites

dG of miRNA-mRNA hybrid (kcal/mole)

Molecular Function

Biological process

CrebA

mir-92b

mir-312

3

4

-16, -24, -19

-16, -20, -17, -22

transcription factor

salivary gland development

fkh

mir-315

3

-18, -16, -17

transcription factor

salivary gland morphogenesis

Eip74EF

mir-34

3

-25, -27, -21

transcription factor

mesoderm development

Eip93F A

mir-280 A

3

-21, -15, -16

transcription factor

autophagy, induction of apoptosis by hormones

pros

mir-34

3

-18, -17, -18

transcription factor

ectoderm development

zfh1

mir-5

3

-17, -15, -15

transcription factor

ectoderm development, mesoderm development

zfh2

mir-276a-3

3

-16, -15, -17

transcription factor, RNA binding

ectoderm development

SoxN

mir-34

mir-309

3

3

-23, -24, -16

-19, -16, -20

transcription factor, DNA bending

ectoderm development, visual perception

HLHm5

mir-7

3

-24, -24, -26

transcription factor

ectoderm development, cell proliferation

CG32527B

mir-34

3

-25, -24, -21

multiple (including transcription factor)

unknown

ab

let-7

5

-20, -25, -17, -17, -19

transcription factor

transmission of nerve impulse, sex determination

sbb

mir-33

3

-16, -17, -19

transcription factor

axon guidance, axon target recognition, larval walking behavior

nerfin-1

mir-279

mir-286

3

3

-19, -17, -24

-19, -16, -27

transcription factor

neuronal lineage restriction

Syn

mir-92b

3

-19, -20, -15

unknown

neurotransmitter secretion, synaptic vesicle exocytois

synaptogyrin

mir-313

3

-17, -16, -15

unknown

synaptic vesicle exocytosis, regulation of calcium ion dependent exocytosis

Pkc98E

mir-210

3

-15, -15, -15

multiple

multiple (including neural processes)

nAcRbeta-96A

mir-210

3

-19, -18, -23

nicotinic acetylcholine-activated cation-selective channel activity, acetylcholine receptor activity

multiple (including neural processes)

W A

bantam

mir-280 A

4

3

-21, -16, -27, -17

-17, -19, -15

unknown

induction of apoptosis, programmed cell death

kel

mir-310

mir-311

mir-312

3

4

4

-20, -19, -22

-17, -21, -19, -15

-16, -18, -20, -17

actin binding

apoptosis, ovarian ring canal formation

RhoGEF2

mir-9c

3

-16, -16, -18

Rho guanyl-nucleotide exchange factor activity, diacylglycerol binding

multiple

adat

mir-3

mir-309

mir-318

3

3

3

-28, -17, -19

-23, -16, -15

-26, -15, -20

tRNA specific adenosine deaminase activity

purine base metabolism

bru-2

mir-9a

mir-9c

3

3

-19, -17, -16

-19, -15, -16

RNA binding

mRNA processing, protein metabolism

CG32062A

mir-12

mir-280 A

4

3

-19, -17, -23, -15

-16, -16, -19

RNA binding

unknown

fus

mir-303

3

-16, -15, -16

RNA binding

epidermal growth factor receptor signaling pathway

mbl A

mir-280 A

3

-17, -17, -21

RNA binding, DNA binding

mesoderm development

Asph

mir-9b

3

-21, -19, -16

peptide-aspartate beta-dioxygenase activity

transmembrane receptor protein tyrosine kinase signaling pathway

CG32429

mir-33

3

-17, -17, -18

unknown

unknown

lmg

mir-34

3

-27, -20, -22

unknown

mitotic anaphase

wb

mir-34

4

-22, -22, -19, -23

binding, structural molecule activity

cell-cell adhesion, cell-matrix adhesion, signal transduction

Cbl

mir-34

3

-22, -17, -22

ligase activity

cellular defense response

Pdi

mir-34

mir-263b

mir-305

mir-316

4

3

4

3

-26, -23, -30, -20

-18, -15, -17

-24, -18, -19, -22

-21, -16, -21

protein disulfide isomerase activity

protein folding, protein modification

CG31637

mir-92b

3

-17, -18, -17

sulfotransferase activity

carbohydrate metabolism

CG3689

mir-210

3

-20, -15, -17

pre-mRNA splicing factor activity

mRNA cleavage, nuclear mRNA splicing, via spliceosome

CG8475

mir-263b

3

-18, -17, -21

kinase activator activity, phosphorylase kinase regulator activity

glycogen metabolism

didum

mir-276a-3

3

-18, -16, -15

multiple

multiple

Ggamma1

mir-277

3

-19, -16, -15

heterotrimeric G-protein GTPase activity

G-protein coupled receptor protein signaling pathway

CG1441

mir-278

3

-30, -22, -26

oxidoreductase activity

unknown

Rh6

mir-278

3

-19, -22, -20

G-protein coupled photoreceptor activity

phototransduction, visual perception, sensory perception

CG31163A

mir-289 A

3

-17, -15, -17

SH3/SH2 adaptor protein activity

unknown

CG18854

mir-306-3

4

-27, -19, -24, -21

inositol-triphosphate 3-kinase activity

unknown

CG7908

mir-309

3

-17, -19, -22

zinc ion binding, metalloendopeptidase avtivity

cell surface receptor linked signal transduction, proteolysis and petidolysis

CG14507

mir-276a-5

mir-276b-5

3

3

-24, -20, -21

-24, -20, -21

phospholipase A2 activity

unknown

CG33085A,B

mir-184-3

mir-284 A

3

3

-21, -22, -16

-23, -25, -17

argininosuccinate lyase activity

unknown

CG32316B

mir-184-3

mir-278

3

3

-20, -22, -16

-18, -20, -23

oxoglutarate dehydrogenase (succinyl-transferring) activity

tricarboxylic acid cycle

CG32912B

mir-279

3

-15, -21, -16

peptidoglycan recognition activity

immune response

CG33047A,B

mir-133

mir-284 A

3

3

-19, -17, -19

-27, -17, -15

alpha-L-fucosidase activity

O-glycoside catabolism, fucose metabolism

CG33075B

mir-306-3

3

-26, -20, -27

carrier activity

transport

CG32956B

mir-9a

mir-9b

mir-9c

mir-33

5

5

5

3

-17, -19, -18, -21, -18

-17, -20, -16, -20, -17

-17, -22, -18, -20, -18

-19, -23, -18

multiple

multiple

CG33038B

mir-9a

mir-9b

mir-9c

4

5

4

-20, -17, -16, -18

-18, -19, -17, -16, -16

-21, -17, -17, -19

multiple

heparan sulfate proteoglycan biosynthesis, proton transport

CG32791

mir-31a

3

-15, -17, -15

unknown

multiple

tinc

mir-34

3

-22, -23, -33

unknown

unknown

CG9932

mir-263b

4

-16, -21, -20, -21

unknown

unknown

CG30389

mir-14

mir-34

3

3

-17, -16, -25

-28, -21, -24

unknown

unknown

CG3975

mir-33

3

-17, -19, -22

unknown

unknown

CG8963

mir-6

3

-16, -17, -17

unknown

unknown

CG3638

mir-184-3

3

-27, -17, -22

unknown

unknown

CG33006B

mir-278

3

-20, -15, -23

unknown

unknown

CG31305B

mir-278

4

-16, -32, -29, -25

multiple

unknown

CG32206A

mir-289 A

3

-15, -15, -16

unknown

unknown

CG12071

mir-305

3

-17, -21, -19

unknown

unknown

  1. A: exact 5' and 3' ends for mir-263a, mir-274, mir-280, mir-282, mir-284, mir-289 have not yet been determined (6); target predictions for these microRNAs are likely to change once the precise microRNA sequences are known
  2. B: gene annotated as a "gene cassette"; molecular function and biological process listed is the union of molecular functions and biological processes for each ORF in the putative dicistronic transcript