Table 2 Pre-transcriptional motifs

From: Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

Name

Motif consensus

MEC

MCS

Region*

Known transcription factor†

Multiplicity score‡

ImaGO enrichment§

ImaGO score§

ME1

GTCACGTD

0.448

45.41

PIG

–

–

–

–

ME2

AWNTGGGTCA

0.393

26.97

PIG

Hr46

–

Oesophagus (13–16)

4.52

ME3

BCATAAATYA

0.369

36.02

PCEIG

Caudal

–

Ubiquitous (13–16)

-6.22

ME4

HAATTAYGCRH

0.365

32.71

PCE5IG

Engrailed

–

–

–

ME5

STATAWAWR

0.358

24.31

C

TATA

–

Ventral nerve cord (13–16)

-5.1

ME6

VATTWGCAT

0.356

44.06

PE5IG

–

3.73

Ubiquitous (11–12)

-7.15

ME7

BYAATTARH

0.338

15.45

PCE5IG

Engrailed

7.08

Ubiquitous (11–12)

-10.26

ME8

HRTCAATCA

0.338

42.32

PIG

–

–

Dorsal pharyngeal muscle PR (11–12)

-4.15

ME9

TGACANNNNNNTGACA

0.336

9

G

–

–

–

–

ME10

RCGTGNNNNGCAT

0.329

15.94

PIG

–

–

–

–

ME11

MATTAAWNATGCR

0.324

12.43

PIG

acj6

–

Tracheal PR (11–12)

4.11

ME12

TTAATGATG

0.32

20.31

PG

–

–

–

–

ME13

WTGACANBT

0.318

63.45

PE5IG

–

4.14

Ubiquitous (13–16)

-3.97

ME14

YGACMTTGA

0.313

27.06

PIG

–

–

Midgut (13–16)

4.32

ME15

AATTRNNNNCAATT

0.309

21.17

PG

–

–

–

–

ME16

TGACGTCAT

0.304

12.24

PC5IG

CrebA

–

–

–

ME17

MAATTNAATT

0.304

51.57

PE5IG

–

–

Ubiquitous (11–12)

-6.66

ME18

MRYTTCCGYY

0.304

39.04

PEIG

Dorsal

–

Ubiquitous (11–12)

-4.4

ME19

MATTRRCACNY

0.303

25.24

PIG

–

–

–

–

ME20

YTAATGAVS

0.298

44.5

PEIG

–

–

Foregut PR (11–12)

4.19

ME21

TAATTRANNTTNATG

0.294

8.67

G

–

–

–

–

ME22

WAATGCGCNT

0.291

18.17

G

–

–

–

–

ME23

MATTWRTCA

0.288

46.25

PEIG

–

–

Dorsal epidermis PR (11–12)

4.4

ME24

YAATTWNRYGC

0.287

30.91

PG

–

4.27

Ubiquitous (11–12)

-4.79

ME25

TTAYGTAA

0.283

13.06

5

Giant

–

Midgut (13–16)

5.32

ME26

YGCGTHAATTR

0.283

13.61

PEG

–

–

–

–

ME27

AATTRYGWCA

0.28

22.85

PEIG

–

–

Pericardial cell (13–16)

4.1

ME28

GCGCATGH

0.28

30.17

PCEG

–

–

Ventral nerve cord PR (11–12)

5.75

ME29

WAATCARCGC

0.275

13.82

G

–

–

–

–

ME30

AATTAANNNNNCATNA

0.271

16.44

G

Antennapedia

–

–

–

ME31

GCGTSAAA

0.271

29.95

PG

–

–

–

–

ME32

YGCGYRTCAWT

0.269

12.87

G

–

–

–

–

ME33

GCGTTGAYA

0.269

15.1

PG

–

–

–

–

ME34

AAATKKCATTA

0.266

14.04

PG

–

–

–

–

ME35

RACASCTGY

0.266

28.38

PCEG

Scute

–

Ventral sensory complex SA (11–12)

4.08

ME36

TGTCAATTG

0.265

12.65

PG

–

–

Tracheal system (13–16)

4.56

ME37

WAATKNNNNNCRCGY

0.261

23.34

PEG

–

–

–

–

ME38

CASGTAR

0.261

9.24

PEG

Single-minded

4.58

Ventral epidermis PR (11–12)

7.41

ME39

WCACGTGC

0.26

10.54

PCE5IG

Enhancer of split

–

–

–

ME40

CATTANNNWAATT

0.259

19.02

G

–

–

–

–

  1. The top 40 of 145 are shown. MEC, motif excess conservation; MCS, motif conservation score. See Supplementary Table 5c for the full table.
  2. *Region where the motif was found: P, promoter, C, core promoter; E, enhancers; 5, 5′ UTR; I, intron; G, intergenic genome.
  3. †The known transcription factor motif matching the consensus sequence.
  4. ‡A multiplicity score is reported for motifs with many repeated occurrences.
  5. §Tissue where motif is most strongly enriched or depleted, and corresponding score (positive, enrichment; negative, depletion). PR, primordium; SA, specific anlage.
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