Table 2

Genes predicted to be targets of the candidate miRNAs affecting mRNA levels.

CE-RSCs

P4

Adult


Gene

miRNAs

Gene

miRNAs

Gene

miRNAs


CUGBP2

153; 24; 183; 378; 33; 30-3p; 342

ACVR2A

27; 96; 29; 128; 196; 150; let-7/98; 124.1; 125/351; 362; 378

ACVR2A

503; 27; 96; 448; 378; 29; 196; 125/351; 150; 124.1; let-7/98


KPNA4

142-5p; 33; 153; 378; let-7/98; 183; 24

TNRC6B

362; 184; 27; 124.1; 9; 204/211; 378; 485-5p; 150; 29; 22

TNRC6B

150; 503; 378; 448; 9; 184; 485-5p; 29; 204/211; 124.1; 27


ZNF148

183; 125/351; 370; 142-5p; 24; 378; 153

NFIB

125/351; 331; 22; 128; 485-5p; 124.1; 29; 27; 9; 24

RICTOR

196; 448; 124.1; 96; 503; 326; 27; let-7/98; 204/211; 29


CLCN5

30-3p; let-7/98; 378; 24; 142-5p; 153

ZNF148

34b; 196; 204/211; 378; 124.1; 24; 128; 370; 125/351; 27

CLCN5

448; 503; 378; 9; 29; 24; let-7/98; 27; 485-5p


CPEB4

142-5p; 33; 342; 125/351; 153; let-7/98

MECP2

34b; 22; 204/211; 378; let-7/98; 196; 326; 96; 124.1

HMGA2

196; 125/351; 204/211; 9; 485-5p; 503; 150; 326; let-7/98


DAGLA

153; 183; 485-3p; 125/351; 24; let-7/98

RP11-130N24.1

362; 96; 9; 29; 125/351; 196; 27; 34b; 124.1

ZNF148

204/211; 196; 124.1; 34b; 125/351; 24; 448; 27; 378


EPHA4

153; 125/351; 33; 30-3p; let-7/98; 183

SP1

125/351; 29; 24; 27; 326; 378; 22; 128; 124.1

CPEB3

196; 125/351; 503; 29; let-7/98; 9; 27; 34b


NARG1

153; 378; 33; 342; 30-3p; 370

ZBTB39

9; 128; 485-5p; 22; 124.1; let-7/98; 27; 331; 370

MECP2

326; 34b; 378; let-7/98; 96; 196; 124.1; 204/211


PTPRD

485-3p; let-7/98; 30-3p; 153; 24; 142-5p

ATXN1

125/351; 29; 9; 370; 326; 96; let-7/98; 34b

NFIB

124.1; 448; 485-5p; 29; 9; 24; 27; 125/351


ACVR2A

125/351; 153; 378; let-7/98; 183

CCNJ

let-7/98; 196; 27; 128; 204/211; 370; 125/351; 96

RP11-130N24.1

9; 125/351; 124.1; 27; 29; 196; 96; 34b


BTBD7

342; 30-3p; 153; 378; 142-5p

CLCN5

29; 9; 485-5p; 378; 24; 128; 27; let-7/98

AKT3

124.1; 150; 503; 29; 448; 326; 125/351


CPEB2

153; 33; let-7/98; 183; 142-5p

CPD

196; 204/211; 370; 128; 150; let-7/98; 331; 27

ATXN1

34b; 125/351; 326; 96; let-7/98; 29; 9


DDX3X

30-3p; 33; 370; 183; 342

CPEB3

128; 9; let-7/98; 125/351; 196; 29; 27; 34b

BRPF3

96; 326; 204/211; 125/351; 27; 503; 9


E2F3

125/351; 153; 370; 378; 342

HMGA2

196; 150; 485-5p; 204/211; 326; 125/351; 9; let-7/98

BSN

448; 124.1; 24; 125/351; 150; 9; 503


FBXO33

; 142-5p; 30-3p; 342; 33; 153

IGF2BP1

370; 331; let-7/98; 196; 24; 96; 326; 9

CCND2

29; 196; 503; 96; let-7/98; 448; 124.1


MLL2

; 142-5p; 342; let-7/98; 370; 33

QKI

128; 485-5p; 9; 125/351; 370; 24; 124.1; 27

CCNJ

204/211; 27; 503; 196; 96; 125/351; let-7/98


PDE4D

; 183; 33; 24; 378; 485-3p

RICTOR

27; 196; 96; 204/211; 29; 326; 124.1; let-7/98

KLF13

9; 96; 125/351; 29; 448; 124.1; 378


QKI

; 24; 370; 33; 125/351; 142-5p

RIMS4

9; 96; 22; 27; 362; 127; 326; 331

MGA

326; 124.1; 378; 29; 9; let-7/98; 485-5p


RNF165

; let-7/98; 153; 24; 33; 142-5p

STC1

485-5p; 124.1; 9; 125/351; 22; 378; 34b; 96

ONECUT2

27; 29; let-7/98; 485-5p; 9; 96; 503


RSBN1

; 342; 183; 153; 378; 485-3p

BRPF3

27; 9; 96; 128; 125/351; 204/211; 326

PAPPA

27; 96; 150; let-7/98; 503; 448; 326


SETD7

; 485-3p; 153; 33; 125/351; 342

CPEB4

362; 96; 125/351; 128; 9; 27; let-7/98

PTPRD

24; 124.1; 204/211; 29; 503; let-7/98; 448


SIX4

; 153; 378; 33; 30-3p; 142-5p

DCX

27; let-7/98; 128; 29; 362; 9; 96

QKI

125/351; 124.1; 9; 503; 24; 485-5p; 27


SLC4A4

; 153; 125/351; 370; 142-5p; let-7/98

DTNA

9; 124.1; 378; 22; 24; 27; 128

RNF165

124.1; 448; let-7/98; 485-5p; 150; 29; 24


SOX11

; 125/351; 153; 33; 142-5p; 485-3p

FRMD4A

29; 9; 204/211; 128; 124.1; 96; 34b

SP1

326; 124.1; 125/351; 29; 378; 27; 24


SP1

; 24; 125/351; 485-3p; 378; 33

GABBR2

128; 9; 22; 378; 326; 204/211; 370

STC1

485-5p; 378; 34b; 124.1; 9; 125/351; 96


STC1

; 125/351; 30-3p; 142-5p; 378; 183

ISL1

27; 29; 128; 96; 9; 362; 378

ZFHX4

204/211; 96; 503; 485-5p; 448; 27; 9


THRAP1

; 485-3p; 142-5p; 183; 153; 24

KLF12

34b; 370; 204/211; 124.1; 29; 9; 27

ACCN2

9; 29; 326; 125/351; 124.1; 27


YOD1

; let-7/98; 183; 24; 30-3p; 125/351

MGA

378; 485-5p; 326; 29; let-7/98; 9; 124.1

APPBP2

9; 448; 378; 27; let-7/98; 29


ZFPM2

; 183; 142-5p; 485-3p; 153; 33

MITF

27; 331; 34b; 378; 124.1; 485-5p; 96

CPEB4

448; 9; 27; 125/351; 96; let-7/98


ARID4B

; 370; 183; 378; 142-5p

MMP16

150; 27; 370; 24; 124.1; 9; 96

CUGBP2

96; 326; 34b; 378; 196; 24


The top 30 genes in each tissue ranked by number of different miRNAs predicted to target them. Genes for which certain miRNA interactions were assessed experimentally are marked in bold. The full list of genes targeted by at least one of the candidate miRNAs affecting mRNA levels is shown in Table S2.

Arora et al. BMC Developmental Biology 2010 10:1   doi:10.1186/1471-213X-10-1

Open Data