Table 1 Structural and interaction properties of validated eukaryotic TR-derived protein extensions.

From: Computational analysis of translational readthrough proteins in Drosophila and yeast reveals parallels to alternative splicing

Species

Gene name

Length CDS/TRE (res)

Disorder/low complexity/secondary structure/disordered binding site content of TRE (%)

Anchor sites in TRE

ELMs with predicted disorder per 100 residues unit length/(ELM patterns in TRE/overlap with disorder/Anchor sites)

ELMs in TRE with a low probability (<1E-03)

Ref.

S. cerevisiae

BSC4

131/107

4.7/0/44.3/0

0

0/(21/0/0)

TRG_NLS_MonoCore_2

13

S. cerevisiae

IMP3

183/80

12.6/0/54.4/0

0

6.3/(33/5/0)

DEG_APCC_DBOX_1, TRG_NLS_MonoExtC_3

9,13

S. cerevisiae

PDE2

526/22

0/0/90.5/0

0

0/(5/0/0)

LIG_SH3_4

14

U. maydis

PGK1

416/9

75.0/0/0/0

0

0/(1/0/0)

TRG_PTS1

10

U. maydis

ART1

418/7

50.0/0/0/0

0

0/(2/0/0)

LIG_PDZ_Class_3 §

22

U. maydis

RPE1

311/9

100.0/0/0/0

0

44.4/(4/4/0)

TRG_PTS1

22

U. maydis

TPI1

248/9

50.0/0/0/0

0

0/(3/0/0)

TRG_PTS1

22

A. nidulans

GAPDH

336/14

84.6/0/0/0

0

21.4/(3/3/0)

LIG_PDZ_Class_1 §

10

D. melanogaster

KEL

689/316

35.6/35.6/38.7 /33.7

8

14.6/(63/46/25)

12

15,18

D. melanogaster

HDC

649/430

64.8/43.1/39.2/43.4

11

28.4/(125/122/70)

5

16,17

D. melanogaster

OAF

332/154

66.7/64.7/28.8/36.0

3

41.6/(65/64/22)

6

56

D. melanogaster

SXL §

366/356

56.6/67.0/29.3/44.5

11

37.1/(132/132/76)

4

57

D. melanogaster

SYN

537/444

51.9/35.7/19.6/49.2

10

41.7/(187/185/104)

15

12

O. cuniculus

HBB1

147/23

27.3/0/4.6/0

0

0/(2/0/0)

—

8,11

H. sapiens

MPZ

248/63

85.5/17.7/30.1/69.4

2

25.4/(16/16/13)

LIG_MYND_1

19

H. sapiens

OPRK1

380/29

21.4/0/42.9/0

0

0/(11/0/0)

LIG_PDZ_Class_1

26,29

H. sapiens

OPRL1

370/29

82.1/0/17.9/0

0

62.1/(18/18/0)

DEG_SCF_FBW7_2, LIG_PDZ_Class_1

26,29

H. sapiens

MAPK10

464/14

15.4/0/30.8/100.0

1

0/(2/0/2)

LIG_PTB_Apo_2

26

H. sapiens

AQP4

323/29

53.6/0/14.3/35.7

1

17.2/(6/5/3)

LIG_PDZ_Class_3

21,26

H. sapiens

VEGFA

232/22

66.7/0/23.8/0

0

54.5/(12/12/0)

—

20

H. sapiens

SYTL2

934/52

0/0/50.1/0

0

9.6/(20/5/0)

LIG_PDZ_Class_2, MOD_LATS_1

21

H. sapiens

CACNA2D4

1137/5

100.0/0/0/0

0

0/(0/0/0)

—

21

H. sapiens

MDH1

334/19

16.7/0/38.9/0

0

0/(4/0/0)

TRG_PTS1

22,30

H. sapiens

LDHB

334/7

66.7/0/0/0

0

0/(6/0/0)

TRG_PTS1, LIG_PDZ_Class_1

21,22

H. sapiens

EDEM3

932/30

27.6/0/48.3/31.0

1

23.3/(9/7/8)

TRG_NLS_MonoExtC_3

21

H. sapiens

AGO1

857/34

78.8/0/30.3/18.2

1

23.5/(8/8/2)

LIG_14–3–3_1

20

H. sapiens

MTCH2

303/11

10.0/0/30.0/0

0

0/(1/0/0)

LIG_PDZ_Class_1

20

  1. §The previously reported functional peroxisome targeting signals were not detected due to their unconventional sequence pattern.
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