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Table 2 Arabidopsis splicing-related proteins

From: The ASRG database: identification and survey of Arabidopsis thalianagenes involved in pre-mRNA splicing

Human homologs

Saccharomyces cerevisiae

Gene name

GeneID

Chromosome

Tnb

AltS

Chromosomal duplication

Protein domain

Reference

1.1 Sm core proteins

         

SmB

SmB1

atSmB-a

At5g44500

5

7

 

>4-5a

Sm, 1

 
  

atSmB-b

At4g20440

4

21

IntronR (1);

>4-5a

Sm, 1

 

SmD1

SmD1

atSmD1-a

At3g07590

3

7

IntronR (1);

 

Sm, 1

 
  

atSmD1-b

At4g02840

4

13

  

Sm, 1

 

SmD2

SmD2

atSmD2-a

At2g47640

2

7

AltA (1); AltD (1);

 

Sm, 1

 
  

atSmD2-b

At3g62840

3

25

AltA (1);

 

Sm, 1

 

SmD3

SmD3

atSmD3-a

At1g76300

1

9

 

>1-1c

Sm, 1

 
  

atSmD3-b

At1g20580

1

7

 

>1-1c

Sm, 1

 

SmE

SmE

atSmE-a

At4g30330

4

2

 

>2-4b

Sm, 1

 
  

atSmE-b

At2g18740

2

10

AltA (1);

>2-4b

Sm, 1

 

SmF

SmF

atSmF

At4g30220

4

6

  

Sm, 1

 

SmG

SmG

atSmG-a

At2g23930

2

13

  

Sm, 1

 
  

atSmG-b

At3g11500

3

9

  

Sm, 1

 

LSM2

LSm2

atLSM2

At1g03330

1

7

  

Sm, 1

 

LSM3

LSm3

atLSM3a

At1g21190

1

6

 

>1-1c

Sm, 1

 
  

atLSM3b

At1g76860

1

16

 

>1-1c

Sm, 1

 

LSM4

LSm4

atLSM4

At5g27720

5

13

  

Sm, 1

 

LSM5

LSm5

atLSM5 /SAD1

At5g48870

5

7

AltA (1);

 

Sm, 1

[47]

LSM6

LSm6

atLSM6a

At3g59810

3

7

 

>2-3

Sm, 1

 
  

atLSM6b

At2g43810

2

5

 

>2-3

Sm, 1

 

LSM7

LSm7

atLSM7

At2g03870

2

6

  

Sm, 1

 

LSM8

LSm8

atLSM8

At1g65700

1

9

  

Sm, 1

 

LSM1

LSm1

atLSM1a

At1g19120

1

8

  

Sm, 1

 
  

atLSM1b

At3g14080

3

9

IntronR (1);

 

Sm, 1

 

1.2 U1 snRNP specific proteins

         

U1A Subunit

Mud1

atU1A

At2g47580

2

14

ExonS (1);

 

RRM, 2

[49]

U1C Subunit

Yhc1

atU1C

At4g03120

4

5

  

C2H2, 1; mrCtermi, 3

 

U1-70K

Snp1

atU1-70K

At3g50670

3

32

IntronR (1);

 

RRM, 1

[48]

-

Prp39

atPrp39a

At1g04080

1

12

ExonS (6);

 

HAT, 7; TPR-like, 1

 
  

atPrp39b

At5g46400

5

1

  

HAT, 4;

 

FBP11

Prp40

atPrp40a

At1g44910

1

10

IntronR (1);

 

WW, 2; FF, 5

 

FBP11

Prp40

atPrp40b

At3g19670

3

5

  

WW, 2; FF, 5

 

Luc7-like protein

Luc7

atLuc7a

At3g03340

3

6

  

DUF259, 1

 
  

atLuc7b

At5g17440

5

8

  

DUF259, 1

 

Related to Luc7-like protein

Luc7

atLuc7-rl

At5g51410

5

7

IntronR (1);

 

DUF259, 1

 

1.3 17S U2 snRNP specific proteins

         

U2A' Subunit

Lea1p

atU2A

At1g09760

1

21

  

LRR 4;

 

U2B" Subunit

Msl1p

atU2B"a

At1g06960

1

6

AltD (1);

>1-2a

RRM, 2

 
  

atU2B"b

At2g30260

2

13

AltA (1); IntronR (1);

>1-2a

RRM, 2;

 

SF3a120/SAP114 Subunit

Prp21p

atSAP114-1a

At1g14650

1

17

AltB (1);

 

SWAP/Surp, 2; Ubiquitin, 1

 
  

atSAP114-1b

At1g14640

1

   

SWAP/Surp, 2

 
  

atSAP114-2

At5g06520

5

   

SWAP/Surp, 4

 
  

atSAP114-3

At4g16200

4

1

  

SWAP/Surp, 3

 
  

atSAP114p

At4g15580

4

   

SWAP/Surp, 3; Ubiquitin, 1

 

SF3a60/SAP61 Subunit

Prp9p

atSAP61

At5g06160

5

10

AltD (1);

 

C2H2, 1

 

SF3a66/SAP62 Subunit

Prp11p

atSAP62

At2g32600

2

13

  

C2H2, 1;

 

SF3b120/SAP130 Subunit

Rse1p

atSAP130a

At3g55200

3

6

  

CPSF_A, 1; WD40-like, 1

[50]

  

atSAP130b

At3g55220

3

7

  

CPSF_A, 1; WD40-like, 1

[50]

SF3b150/SAP145 Subunit

Cus1p

atSF3b150

At4g21660

4

16

  

PSP, 1; DUF382, 1

 
  

atSF3b150p

At1g11520

1

     

SF3b160/SAP155 Subunit

Hsh155

atSAP155

At5g64270

5

11

  

HEAT, 1; ARM, 2; SAP_155, 1

 

SF3b53/SAP49 Subunit

Hsh49p

atSAP49a

At2g18510

2

20

  

RRM, 2

 
  

atSAP49b

At2g14550

2

   

RRM, 2

 

p14

Snu17p

atP14-1

At5g12190

5

7

  

RRM, 1;

 
  

atP14-2

At2g14870

2

   

RRM, 1;

 

SF3b 14b /PHP5A

Rds3p

atSF3b_14b-a

At1g07170

1

10

 

>1-2a

UPF0123, 1;

 
  

atSF3b_14b -b

At2g30000

2

8

 

>1-2a

UPF0123, 1;

 

SF3b 10

 

SF3b10a

At4g14342

4

11

  

SF3b10, 1;

 
  

SF3b10b

At3g23325

3

6

  

SF3b10, 1;

 

1.4 U5 snRNP specific proteins

         

15 kD Subunit

Dib1p

atU5-15

At5g08290

5

28

  

DIM1, 1; Thioredoxin_2; 1

 

40 kD Subunit

 

atU5-40

At2g43770

2

21

  

WD-40, 7;

 

100 kD Subunit

Prp28p

atU5-100KD

At2g33730

2

13

  

DEAD, 1; Helicase_C, 1

 

102 KD/Prp6-like

Prp6p

atU5-102KD

At4g03430

4

18

  

Ubiquitin, 1; TPR, 3; HAT, 15; TPR-like, 2; Prp1_N, 1

 

116 kD Subunit /elongation

Snu114p

atU5-116-1a

At1g06220

1

19

ExonS (1);

 

EFG_C, 1; GTP_EFTU, 1; GTP_EFTU_D2; 1; Small_GTP, 1; EFG_IV, 1;

 
  

atU5-116-1b

At5g25230

5

   

EFG_C, 1; GTP_EFTU, 1; GTP_EFTU_D2; 1; EFG_IV, 1;

 
  

atU5-116-2

At1g56070

1

214

  

EFG_C, 1; GTP_EFTU, 1; GTP_EFTU_D2; 1; EFG_IV, 1;

 
  

atU5-116-3

At3g22980

3

3

  

EFG_C, 1; GTP_EFTU, 1; Small_GTP, 1;

 

200 kD Subunit/Helicase

Brr2p

atU5-200-1

At5g61140

5

11

IntronR (1);

 

DEAD, 2; Helicase_C, 2; Sec63, 2; ARM, 1

 
  

atU5-200-2a

At1g20960

1

23

  

DEAD, 2; Helicase_C, 2; Sec63, 2

 
  

atU5-200-2b

At2g42270

2

5

  

DEAD, 2; Helicase_C, 2; Sec63, 2

 
  

atU5-200-3

At3g27730

3

   

DEAD, 1; Sec63, 1; RuvA domain 2-like, 1

 

220 kD Subunit

Prp8p

atU5-220/Prp8a

At1g80070

1

33

  

Mov34, 1

 
  

atU5-220/Prp8b

At4g38780

4

2

  

Mov34, 1

 

1.5 U4/U6 snRNP specific proteins

         

U4/U6-90K / SAP90

Prp3p

atSAP90-1

At1g28060

1

10

    
  

atSAP90-2

At3g55930

3

     
  

atSAP90-3

At3g56790

3

     

U4/U6-60K / SAP60

Prp4p

atSAP60

At2g41500

2

8

  

WD-40, 7; SFM, 1; WD40-like, 1

 

U4/U6-20K / CYP20

 

atTri-20

At2g38730

2

11

  

Pro_isomerase, 1

 

U4/U6-61KD

Prp31

atU5-61/Prp31a

At1g60170

1

26

  

Nop, 1

 
  

atU5-61/Prp31b

At3g60610

3

   

Nop, 1

 

U4/U6-15.5K

Snu13p

atU4/U6-15.5a

At5g20160

5

18

IntronR (2);

 

Ribosomal_L7Ae, 1

 
  

atU4/U6-15.5b

At4g12600

4

14

  

Ribosomal_L7Ae, 1

 
  

atU4/U6-15.5c

At4g22380

4

9

  

Ribosomal_L7Ae, 1

 

1.6 Tri-snRNP specific proteins

         

Tri-65 KD

Snu66p

atTri65a

At4g22350

4

7

  

UCH; 1; ZnF_UBP, 1

 
  

atTri65b

At4g22290

4

20

  

UCH; 1; ZnF_UBP, 1; Pentaxin, 1

 
  

atTri65c

At4g22410

4

   

UCH; 1; ZnF_UBP, 1

 

Tri-110 KD

SAD1

atTri110

At5g16780

5

7

  

SART-1, 1

 

Tri-27 kD/RY1

 

atTri-27 kD/RY1

At5g57370

5

14

    

hSnu23/FLJ31121

Snu23p

atSnu23

At3g05760

3

7

  

ZnF_U1, 1;

 

1.7 18S U11/U2 snRNP specific proteins

         

U11/U12-35K

 

atU11/U12-35kD

At2g43370

2

7

IntronR (1);

 

RRM, 1

 

U11/U12-25K (-99 protein)

 

atU11/U12-25K

At3g07860

3

6

IntronR (2);

 

C2H2, 1;

 

U11/U12-65K

 

atU11/U12-65K

At1g09230

1

15

AltA (1);

 

RRM, 2;PHOSPHOPANTETHEINE, 2;

 

U11/U12-31K (MADP1)

 

atU11/U12-31K

At3g10400

3

5

  

RRM, 1;CCHC, 1;

 

2.1 Splice site selection

         

U2AF35

 

atU2AF35a/AUSa

At1g27650

1

26

  

RRM, 1; CCCH, 2;

 
  

atU2AF35/AUSb

At5g42820

5

8

  

RRM, 1; CCCH, 2;

[58]

U2AF65

Mud2

atU2AF65b/AULa

At1g60900

1

10

  

RRM, 3;

[58]

  

atU2AF65a/AULb

At4g36690

4

29

AltA (1); IntronR (2);

 

RRM, 2;

[58]

  

atULrp

At2g33440

2

2

  

RRM, 1

 
  

AUL3p

At1g60830

1

     

U2AF35 related protein

 

atUrp

At1g10320

1

   

RRM, 1; CCCH, 2;

 

SF1/BBP

 

atSF1/BBP

At5g51300

5

23

IntronR (1);

 

RRM, 1; CCHC, 2; KH, 1;

 

CBP20

Cbc1

atCBP20

At5g44200

5

8

  

RRM, 1

[56]

CBP80

Cbc2p

atCBP80

At2g13540

2

21

  

MIF4G, 1; ARM, 3

[56]

PTB/hnRNP I

 

atPTB1

At1g43190

1

26

  

RRM, 4;

 
  

atPTB2a

At3g01150

3

21

AltD (1); ExonS (1);

RRM, 2

  
  

atPTB2b

At5g53180

5

17

ExonS (1);

 

RRM, 2

 

2.2 SR proteins

         

SC35

 

atSC35

At5g64200

5

32

AltD (1);

 

RRM, 1;

[61]

SRrp40/TASR-2

 

atSR33/atSCL33

At1g55310

1

12

IntronR (1);

>1-3b

RRM, 1

[63]

  

atSCL30a

At3g13570

3

32

ExonS (2); IntronR (4);

>1-3b

RRM, 1

[61]

  

atSCL30

At3g55460

3

14

ExonS (1);

 

RRM, 1

[61]

  

atSCL28

At5g18810

5

5

  

RRM, 1

[61]

SF2/ASF

 

atSR1/atSRp34

At1g02840

1

37

AltA (1); IntronR (1);

>1-4

RRM, 2

[64,67]

  

atSRp34a

At4g02430

4

13

AltA (1); ExonS (1); IntronR (4);

>1-4

RRM, 2

 
  

atSRp34b

At3g49430

3

3

ExonS (1); IntronR (1);

RRM, 2

  
  

atSRp30

At1g09140

1

15

AltA (1);

 

RRM, 2

[65]

9G8

 

atRSZp22/atSRZ22

At4g31580

4

26

 

>2-4e

RRM, 1; CCHC, 1

[63,66]

  

atRSZp22a

At2g24590

2

7

 

>2-4e

RRM, 1; CCHC, 1

[63,66]

  

atRSzp21/atSRZ21

At1g23860

1

18

  

RRM, 1; CCHC, 1

[63,66]

  

atRSZ33

At2g37340

2

30

IntronR (1);

>2-3

RRM, 1; CCHC, 2

[61]

  

atRSZ34

At3g53500

3

36

AltA (1); IntronR (3);

>2-3

RRM, 1; CCHC, 2

[61]

-

 

atRSp32

At2g46610

2

23

AltD (1); IntronR (1);

>2-3

RRM, 2

 
  

atRSp31

At3g61860

3

17

AltA (1);

>2-3

RRM, 2

[59]

  

atRSp41

At5g52040

5

34

AltA (1);

>4-5b

RRM, 2

[59]

  

atRSp40/atRSP35

At4g25500

4

15

ExonS (1); IntronR (1);

>4-5b

RRM, 2

[59]

2.3 17S U2 associated proteins

         

hPrp43

Prp43p

atPrp43-1

At5g14900

5

   

HA2, 1

 
  

atPrp43-2a

At3g62310

3

17

AltA (1);

>2-3

DEAD, 1; Helicase_C, 1; HA2, 1

 
  

atPrp43-2b

At2g47250

2

14

 

>2-3

DEAD, 1; Helicase_C, 1; HA2, 1

 

SR140

 

atSR140-1

At5g25060

5

11

  

Surp, 1;RRM, 1;, 1;RPR, 1;

 
  

atSR140-2

At5g10800

5

2

  

Surp, 1;RRM, 1;RPR, 1;

 

SPF45

 

atSPF45

At1g30480

1

9

  

D111/G-patch domain, 1; RRM, 1;

 

SPF30

 

atSPF30

At2g02570

2

9

AltA (1);

 

Tudor, 1;

 

2.4 35S U5 associated proteins

         

hPrp19*

Prp19p

atPrp19a

At1g04510

1

18

 

>1-2a

WD-40, 7; Ubox, 1;

 
  

atPrp19b

At2g33340

2

27

IntronR (1);

>1-2a

WD-40, 7; Ubox, 1;

 

CDC5*

Cef1

atCDC5

At1g09770

1

12

  

SANT, 2;

[104]

PRL1*

Prp46p

atPRL1

At4g15900

4

14

  

WD-40, 2;WD40like, 1;

 
  

atPRL2

At3g16650

3

6

  

WD-40, 2;WD40like, 1;

 

AD-002*

Cwc15p

atAD-002

At3g13200

3

22

  

Cwf_Cwc_15, 1;

 

HSP73/HSPA8*

 

HSP73-1

At3g12580

3

35

  

Hsp70, 1;

 
  

HSP73-2

At5g42020

5

51

IntronR (1);

 

Hsp70, 1;

 
  

HSP73-3

At5g02500

5

553

IntronR (1);

 

Hsp70, 1;

 

SPF27/BCAS2*

 

atSPF27

At3g18165

3

15

  

BCAS2, 1;

 

beta catenin-like 1*

 

atCTNNNBL1

At3g02710

3

12

  

Armadillo, 1;ARM, 1;

 

hSyf1

Syf1p

atSyf1

At5g28740

5

7

  

TPR, 1;HAT, 10;TPRlike, 3;

 

hSyf3/CRN

Syf3

atCRN1a

At5g45990

5

   

TPR, 1; HAT, 14; TPR-like, 2

 
  

atCRN1b

At3g13210

3

   

TPR, 1; HAT, 12; TPR-like, 2

 
  

atCRN1c

At5g41770

5

13

  

TPR, 1; HAT, 14; TPR-like, 2

 
  

atCRN2

At3g51110

3

8

  

TPR, 1; HAT, 9; TPR-like, 1

 

hIsy1

Isy1p

atlsy1

At3g18790

3

10

  

Isy1, 1;

 

GCIP p29

Syf2

atGCIPp29

At2g16860

2

12

    

SKIP

Prp45p

atSKIP

At1g77180

1

28

  

SKIP/SNW, 1;

 

hECM2

Ecm2p

atECM2-1a

At1g07360

1

21

 

>1-2a

RRM, 1;CCCH, 1;

 
  

atECM2-1b

At2g29580

2

10

 

>1-2a

RRM, 1;CCCH, 1;

 
  

atECM2-2

At5g07060

5

   

CCCH, 1;

 

KIAA0560

 

atAquarius

At2g38770

2

11

    

MGC23918

 

atMGC23918

At3g05070

3

7

    

G10

Cwc14p

atG10

At4g21110

4

12

  

G10, 1;

 

Cyp E

 

atCypE1a/CYP2

At2g21130

2

4

 

>2-4c

Pro_isomerase, 1

 
  

atCypE1b

At4g38740

4

59

 

>2-4c

Pro_isomerase, 1;

 
  

atCypE2a/ROC3

At2g16600

2

39

 

>2-4a

Pro_isomerase, 1

 
  

atCypE2b

At4g34870

4

80

 

>2-4a

Pro_isomerase, 1;

 

PPIase-like 1

 

atPPIase-like1

At2g36130

2

10

  

Pro_isomerase, 1;

 

2.5 Proteins specific for BΔU1

         

NPW38

 

atNPW38

At2g41020

2

16

AltD (1); IntronR (1);

 

WW, 2;

 

N-CoR1

 

atN-CoR1

At3g52250

3

3

  

SANT, 2;Homeodomain_like, 2;

 

hPrp4 kinase

 

atPRP4K-1

At3g25840

3

13

ExonS (1);

 

Pkinase, 1;TyrKc, 1;S_Tkc, 1;, 1;Kinase_like, 1;

 
  

atPRP4K-2

At1g13350

1

5

IntronR (1);

 

Pkinase, 1;TyrKc, 1;S_Tkc, 1;, 1;Kinase_like, 1;

 
  

atPRP4K-3

At3g53640

3

   

Pkinase, 1;TyrKc, 1;S_Tkc, 1;, 1;Kinase_like, 1;

 

FBP-21

 

atFBP21

At1g49590

1

12

ExonS (1); IntronR (3);

C2H2, 1;

  

TBL1-rp 1

 

atTBL1-rp1

At5g67320

5

14

  

WD-40, 5;Peptidase_S9A_N, 1;LisH, 1;WD40like, 1;

 

Smc-1

 

atSmc1

At3g54670

3

12

  

ATP_GTP_A_BS, 1;SMC_N, 1;SMC_C, 1;ABC_transporter, 1;SMC_hinge, 1;

 

2.6 Exon junction complex (EJC) proteins

         

ALY

Yra1p

atALY-1a

At5g02530

5

19

IntronR (1);

 

RRM, 1;

 
  

atALY-1b

At5g59950

5

16

IntronR (1);

 

RRM, 1;

 
  

atALY-2a

At5g37720

5

17

 

>1-5b

RRM, 1;

 
  

atALY-2b

At1g66260

1

38

ExonS (1);

>1-5b

RRM, 1;

 

Y14

 

atY14

At1g51510

1

10

IntronR (1);

 

RRM, 1;RBM8, 4;

 

Srm160-like

 

atSRM102

At2g29210

2

18

AltA (1);

 

PWI, 1

 

Magoh

 

atMagoh

At1g02140

1

19

  

Mago_nashi, 1;

 

Nuk-34/eIF4A3/DDX48

 

atDDX48/eIF4A3-1

At3g19760

3

50

 

>1-3a

DEAD, 1;Helicase_C, 1;

 
  

atDDX48/eIF4A3-2

At1g51380

1

5

 

>1-3a

DEAD, 1;Helicase_C, 1;

 

RNPS1

 

atSR45/atRNPS1

At1g16610

1

27

AltA (1);

 

RRM, 1

[63]

UAP56

 

atUAP56a

At5g11200

5

21

AltA (1);

 

DEAD, 1; Helicase_C, 1

 
  

atUAP56b

At5g11170

5

25

  

DEAD, 1; Helicase_C, 1

 

pinin

 

atPinin

At1g15200

1

9

AltA (1);

 

Pinin/SDK/memA, 1;

 

2.7 Second step splicing factors

         

Prp22

Prp22

atPrp22-1

At3g26560

3

11

  

DEAD, 1; Helicase_C, 1; S1, 1; HA2, 1;

 
  

atPrp22-2

At1g26370

1

5

  

DEAD, 1; Helicase_C, 1; HA2, 1

 
  

atPrp22-3

At1g27900

1

15

  

DEAD, 1; Helicase_C, 1; HA2, 1

 

Prp17

Prp17p

atPrp17-1

At1g10580

1

10

  

WD-40, 7;

 
  

atPrp17-2

At5g54520

5

5

AltA (1);

 

WD-40, 6;

 

Prp18

Prp18

atPrp18-1

At1g03140

1

16

  

Prp18, 1; SFM 1;

 
  

atPrp18-2

At1g54590

1

   

Prp18, 1

 

Slu7

Slu7p

atSLU7-1a

At1g65660

1

6

    
  

atSLU7-1b

At4g37120

4

11

    
  

atSLU7-2

At3g45950

3

     

Prp16

Prp16p

atPrp16

At5g13010

5

22

  

DEAD, 1; Helicase_C, 1; HA2, 1

 

2.8 Other known splicing factors

         

SRm300

 

atSRM300like

At3g23900

3

5

AltD (1);

 

RRM, 1; Filamin/ABP280 repeat, 1

 

hTra-2/SFRS10

 

atTra/SFRS1

At1g07350

1

25

ExonS (1); IntronR (3);

 

RRM, 1

 

Prp2

 

atPrp2-1a

At1g32490

1

9

 

>1-2c

DEAD, 1; Helicase_C, 1; HA2, 1

 
  

atPrp2-1b

At2g35340

2

  

>1-2c

DEAD, 1; Helicase_C, 1; HA2, 1

 
  

atPrp2-2

At4g16680

4

   

DEAD, 1; Helicase_C, 1; HA2, 1

 

Prp5

 

atPrp5-1a

At3g09620

3

   

DEAD, 1; Helicase_C, 1

 
  

atPrp5-1b

At1g20920

1

11

  

DEAD, 1; Helicase_C, 1

 
  

atPrp5-2

At2g47330

2

9

  

DEAD, 1; Helicase_C, 1

 

hDbr1

dbr1

atDbr1

At4g31770

4

12

  

Metallophos, 1; DBR1, 1

 

3.1 SR protein kinase

         

Lammer/CLK kinase

 

AFC1

At3g53570

3

11

AltA (1); IntronR (3);

 

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

[74]

  

AFC2

At4g24740

4

9

ExonS (1);

 

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

[74]

  

AFC3

At4g32660

4

9

AltD (1); IntronR (1);

 

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

[74]

SRPK1

 

atSRPK1a

At2g17530

2

7

 

>2-4a

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

 
  

atSRPK1b

At4g35500

4

10

 

>2-4a

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

 

SRPK2

 

atSRPK2a

At5g22840

5

2

  

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

 
  

atSRPK2b

At3g53030

3

7

  

PKinase, 1; TyrKc, 1; S_Tkc, 1; PKinase-like, 1

 
  

atSRPK2c

At3g44850

3

1

  

PKinase, 1; TyrKc, 1; PKinase-like, 1

 

3.2 Glycine-rich RNA binding protein

         

HnRNP A/B

 

atGRBP1a

At1g18630

1

5

 

>1-1c

RRM, 1

 
  

atGRBP1b

At1g74230

1

14

 

>1-1c

RRM, 1; Eggshell, 4

 
  

atGRBP1c

At4g13850

4

17

 

>3-4

RRM, 1

 
  

atGRBP1d

At3g23830

3

12

AltA (1);

>3-4

RRM, 1

 
  

atGRBP1e

At5g61030

5

8

  

RRM, 1; PfkB_Kinase, 1

 
  

atGRBP2

At2g16260

2

   

RRM, 1

 
  

AtGRP7/atGRBP3a

At2g21660

2

182

AltD (1); IntronR (3);

>2-4c

RRM, 1

[77]

  

AtGRP8/atGRBP3b

At4g39260

4

67

AltB (1); AltD (1); IntronR (5);

>2-4c

RRM, 1

[77]

3.3 hnRNP A/B family

         

hnRNP A/B

 

AtRNPA/B_1

At4g14300

4

4

  

RRM, 2

[11]

  

AtRNPA/B_2

At2g33410

2

13

  

RRM, 2

[11]

  

AtRNPA/B_3

At5g55550

5

13

IntronR (3);

>4-5c

RRM, 2

[11]

  

AtRNPA/B_4

At4g26650

4

21

 

>4-5c

RRM, 2

[11]

  

AtRNPA/B_5

At5g47620

5

12

AltD (2);

 

RRM, 2

[11]

  

AtRNPA/B_6

At3g07810

3

18

AltA (1);

 

RRM, 2; FKBP_PPIASE_2, 2

[11]

  

AtRNPA/B_7

At1g58470

1

6

  

RRM, 2

 
  

AtRNPA/B_8a

At5g40490

5

3

  

RRM, 2; Eggshell, 4

 
  

AtRNPA/B_8b

At1g17640

1

   

RRM, 2

 
  

AtRNP_N1

At3g13224

3

16

IntronR (1);

 

RRM, 2;HUDSXLRNA, 2;

 
  

UBA2a

At3g56860

3

23

IntronR (1);

>2-3

RRM, 2

[78]

  

UBA2b

At2g41060

2

9

 

>2-3

RRM, 2

[78]

  

UBA2c

At3g15010

3

10

IntronR (1);

 

RRM, 2

[78]

3.4 Other hnRNPs (with animal homologs)

         

hnRNP E1/E2

 

at-hnRNP-E

At3g04610

3

10

  

KH, 3;

 

hnRNP F/ hnRNP H

 

at-hnRNP-F/ AtRNPH/F_1

At5g66010

5

9

AltA (1);

 

RRM, 2

[11]

  

at-hnRNP-H/ AtRNPH/F_2

At3g20890

3

   

RRM, 2

[11]

hnRNP G

 

at-hnRNP-G1

At5g04280

5

6

  

RRM, 1; CCHC, 1

 
  

at-hnRNP-G2

At3g26420

3

35

AltA (1);

 

RRM, 1; CCHC, 1

 
  

at-hnRNP-G3

At1g60650

1

7

  

RRM, 1; CCHC, 1

 

hnRNP P2

 

at-hnRNP-P

At1g50300

1

9

  

RRM, 1; ZnF_RBZ, 2

 

hnRNP R/Q

 

hnRNP-R1

At4g00830

4

19

  

RRM, 3;

 
  

hnRNP-R2

At3g52660

3

1

 

>2-3

RRM, 3;

 
  

hnRNP-R3 / AtRNPA/B_9

At2g44710

2

13

 

>2-3

RRM, 3

 

CUG-BP

 

AtCUG-BP1

At4g03110

4

4

AltA (1); IntronR (1);

 

RRM, 3; HUDSXLRNA, 4

[11]

  

AtCUG-BP2

At1g03457

1

9

AltA (1);

 

RRM, 3; HUDSXLRNA, 4

[11]

(CUG-BP)

 

atFCA1

At4g16280

4

13

AltB (1); IntronR (1);

 

RRM, 2; WW, 1

[81]

  

atFCA2

At2g47310

2

6

  

RRM, 2; WW, 1

 

3.5 Other plant hnRNPs

         
  

AtUBP1a

At1g54080

1

48

AltA (1);

>1-3b

RRM, 3

[84]

  

AtUBP1c

At3g14100

3

13

 

>1-3b

RRM, 3

[84]

  

AtUBP1b

At1g17370

1

17

  

RRM, 3

[84]

  

UBA1a

At2g22090

2

15

 

>2-4c

RRM, 1

[78]

  

UBA1b

At2g22100

2

2

 

>2-4c

RRM, 1

[78]

  

UBA1c

At2g19380

2

1

  

RRM, 1; C2H2, 3

[78]

  

atRBP45a

At5g54900

5

42

 

>4-5c

RRM, 3

[85]

  

atRBP45c

At4g27000

4

52

 

>4-5c

RRM, 3

[85]

  

AtRBP45b

At1g11650

1

53

  

RRM, 3

[85]

  

atRBP45d

At5g19350

5

10

  

RRM, 3

 
  

AtRBP47a

At1g49600

1

10

 

>1-3a

RRM, 3

[85]

  

AtRBP47b

At3g19130

3

21

 

>1-3a

RRM, 3

[85]

  

AtRBP47c

At1g47490

1

23

IntronR (1);

 

RRM, 3

[85]

  

AtRBP47c'

At1g47500

1

12

  

RRM, 3

[85]

  

Ath1

At4g16830

4

34

  

HANP4_PAI-RBP1, 1

[105]

  

Ath2

At4g17520

4

29

 

>4-5a

HANP4_PAI-RBP1, 1

[105]

  

Ath3

At5g47210

5

67

IntronR (1);

>4-5a

HANP4_PAI-RBP1, 1

 
  1. Gene names were kept consistent with names used in previous publications or derived from the names of the respective homologs (yeast names are given in the S.c. column, where available). The Tnb column gives the numbers of cognate cDNAs and ESTs supporting the gene structure. The AltS column indicates evidence for alternative splicing, including alternative donor site (AltD), alternative acceptor site (AltA), alternative position (AltP, both acceptor and donor sites are different), exon skipping (ExonS), and intron retention (IntronR). Chromosomal duplication indicates a known chromosome duplication region. Functional groups of proteins are separated by long lines spanning all columns. Different members in the group are separated by short lines starting at the Arabidopsis gene name. Genes duplicated in Arabidopsis are clustered together with no line between them. Dash line separate the Prp19 complex from other 35S U5 associated proteins and * indicates proteins in that complex. Abbreviations for domains are as follows: ABC_transporter: ABC transporter; Armadillo: Armadillo; ARM: ARM repeat fold; ATP_GTP_A_BS: ATP/GTP-binding site motif A (P-loop); BCAS2: Breast carcinoma amplified sequence 2; C2H2: Zn-finger, C2H2 matrin type; C2H2: Zn-finger, C2H2 type; CCCH: Zn-finger, C-x8-C-x5-C-x3-H type; CCHC: Zn-finger, CCHC type; CPSF_A: CPSF A subunit, C-terminal; Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; DBR1: Lariat debranching enzyme, C-terminal; DEAD: ATP-dependent helicase, DEAD-box; DEAD: DEAD/DEAH box helicase; DIM1: Pre-mRNA splicing protein; DUF259: Protein of unknown function DUF259; DUF382: Protein of unknown function DUF382; EFG_C: Elongation factor G, C-terminal; EFG_IV: Elongation factor G, domain IV; Eggshell: Eggshell protein; FF: FF domain; FKBP_PPIASE_2: Peptidylprolyl isomerase, FKBP-type; G10: G10 protein; GTP_EFTU_D2: Elongation factor Tu, domain 2; GTP_EFTU: Protein synthesis factor, GTP-binding; HA2: Helicase-associated region; HANP4_PAI-RBP1, 1: Hyaluronan/mRNA binding protein; HAT: RNA-processing protein, HAT helix; Helicase_C: Helicase, C-terminal; Homeodomain_like: Homeodomain-like; Hsp70: Heat shock protein Hsp70; HUDSXLRNA: Paraneoplastic encephalomyelitis antigen; Isy1: Isy1-like splicing; Kinase_like: Protein kinase-like; LisH: Lissencephaly type-1-like homology motif; LRR: Leucine-rich repeat,; Mago_nashi: Mago nashi protein; Metalloph: Metallophosphoesterase; MIF4G: Initiation factor eIF-4 gamma, middle; Mov34: Mov34/MPN/PAD-1; mrCtermi: Molluscan rhodopsin C-terminal tail; Nop: Pre-mRNA processing ribonucleoprotein, binding region; Peptidase_S9A_N: Peptidase S9A, prolyl oligopeptidase, N-terminal beta-propeller domain; PfkB_Kinase: Carbohydrate kinase, PfkB; PHOSPHOPANTETHEINE: Phosphopantetheine attachment site; Pinin/SDK/memA: Pinin/SDK/memA protein; Pkinase: Protein kinase; Pro_isomerase: Peptidyl-prolyl cis-trans isomerase, cyclophilin type; Prp18: Prp18 domain; Prp1_N: PRP1 splicing factor, N-terminal; PSP: PSP, proline-rich; PWI: Splicing factor PWI; RBM8: RNA binding motif protein 8; Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45; RPR: Regulation of nuclear pre-mRNA protein; RRM: RNA-binding region RNP-1 (RNA recognition motif); S1: RNA binding S1; SANT: Myb DNA-binding domain; SAP_155: Splicing factor 3B subunit_1; SART-1: SART-1 protein; Sec63: Sec63 domain; SF3b10: Splicing factor 3B subunit 10; SFM: Splicing factor motif; SKIP/SNW: SKIP/SNW domain; Small_GTP: Small GTP-binding protein domain; SMC_C: Structural maintenance of chromosome protein SMC, C-terminal; SMC_hinge: SMCs flexible hinge; SMC_N: SMC protein, N-terminal; Sm_like_riboprot: Small nuclear-like ribonucleoprotein; Sm: Small nuclear ribonucleoprotein (Sm protein); S_Tkc: Serine/threonine protein kinase; Surp: SWAP/Surp; Thioredoxin_2: Thioredoxin domain 2; TPRlike: TPR-like; TPR: TPR repeat; Tudor: Tudor domain; TyrKc: Tyrosine protein kinase; Ubox: Zn-finger, modified RING; UCH: Peptidase C19, ubiquitin carboxyl-terminal hydrolase family 2; UPF0123: Protein of unknown function UPF0123; UPF0123: Protein of unknown function UPF0123; WD-40: G-protein beta WD-40 repeat; WD40like: WD40-like; WW: WW/Rsp5/WWP domain; ZnF_RBZ: Zn-finger, Ran-binding; ZnF_U1: Zn-finger, U1-like; ZnF_UBP: Zn-finger in ubiquitin thiolesterase.
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