Plant Transcription factor database - Universität Potsdam
version: 3.0

Sorghum bicolor MADS Family

Description

Riechmann & Meyerowitz. 1997: The MADS domain (MCM1, AGAMOUS, DEFICIENS, and SRF, serum response factor) is a conserved DNA-binding/dimerization region present in a variety of transcription factors from different kingdoms. MADS box genes represent a large multigene family in vascular plants. In angiosperms, many of the genes of the MADS family are involved in different steps of flower development, most notably in the determination of floral meristem and organ identity. The roles that MADS box genes play, however, are not restricted to control the development of the plant reproductive structures. The genetic, molecular, and biochemical basis of the action of the MADS domain proteins in the plant life cycle are reviewed here.

Members of this family
  SHOULD possess SRF-TF domain

Domain alignments

Benchmark against A. thaliana

The Sensitivity and Positive Predictive Value (PPV) were assessed for this family. The data reported by Parenicova et al. 2003 for A. thaliana were taken as gold standard.

The gold standard reported 108 members for this family, 99 of which are present in ArabTFDB, giving a PPV of 0.95. Nine additional members not present in ArabTFDB might be false negatives, giving a Sensitivity of 0.92.

This family is also present in:

References

There are 70 gene models in this family



Gene modelDescriptionDomains
123181 fgenesh1_pm.C_chr_1000235 K-box SRF-TF
142714 estExt_fgenesh1_pm.C_chr_20601 K-box SRF-TF
143968 estExt_fgenesh1_pm.C_chr_31559 SRF-TF
144632 estExt_fgenesh1_pm.C_chr_40774 K-box SRF-TF
147544 estExt_fgenesh1_kg.C_chr_10531 K-box SRF-TF
149403 estExt_fgenesh1_kg.C_chr_70195 K-box SRF-TF
3992928 gw1.836.3.1 SRF-TF
4001822 gw1.3.1557.1 SRF-TF
4004052 gw1.4.1785.1 SRF-TF
4013152 gw1.2.2460.1 SRF-TF
4013267 gw1.2.2467.1 SRF-TF
4014484 gw1.8.2966.1 SRF-TF
4104515 gw1.9.12111.1 SRF-TF
4152679 gw1.9.16687.1 SRF-TF
4741291 estExt_Genewise1.C_chr_11600 K-box SRF-TF
4743595 estExt_Genewise1.C_chr_17992 K-box SRF-TF
4746471 estExt_Genewise1.C_chr_20165 K-box SRF-TF
4750740 estExt_Genewise1.C_chr_30521 K-box SRF-TF
4763159 estExt_Genewise1.C_chr_70232 K-box SRF-TF
4767443 estExt_Genewise1.C_chr_91651 K-box SRF-TF
4785130 e_gw1.2.661.1 SRF-TF
4794277 e_gw1.2.679.1 SRF-TF
4794970 e_gw1.2.2612.1 SRF-TF
4795880 e_gw1.2.1596.1 SRF-TF
4800663 e_gw1.3.16462.1 SRF-TF
4802918 e_gw1.3.19442.1 SRF-TF
4803367 e_gw1.3.19216.1 K-box SRF-TF
4805178 e_gw1.3.4508.1 SRF-TF
4807732 e_gw1.3.16461.1 SRF-TF
4808556 e_gw1.4.1552.1 K-box SRF-TF
4821290 e_gw1.5.15784.1 SRF-TF
4828336 e_gw1.6.17088.1 SRF-TF
4830234 e_gw1.6.13008.1 SRF-TF
4830615 e_gw1.6.13007.1 SRF-TF
4833984 e_gw1.6.15671.1 K-box SRF-TF
4834060 e_gw1.7.15488.1 K-box SRF-TF
4838364 e_gw1.7.782.1 SRF-TF
4838427 e_gw1.7.3620.1 SRF-TF
4838520 e_gw1.7.3598.1 SRF-TF
4843093 e_gw1.8.13911.1 SRF-TF
4843627 e_gw1.8.11997.1 K-box SRF-TF
4845396 e_gw1.8.2659.1 SRF-TF
4861231 e_gw1.10.11794.1 SRF-TF
4864164 e_gw1.10.15537.1 SRF-TF
4872729 estExt_Genewise1Plus.C_chr_112121 K-box SRF-TF
4883417 estExt_Genewise1Plus.C_chr_46554 K-box SRF-TF
4887857 estExt_Genewise1Plus.C_chr_65593 K-box SRF-TF
4892494 estExt_Genewise1Plus.C_chr_81610 K-box SRF-TF
4896986 estExt_Genewise1Plus.C_chr_101512 K-box SRF-TF
4968935 fgenesh1_pg.C_chr_2000251 SRF-TF
4972192 fgenesh1_pg.C_chr_2003508 SRF-TF
4976746 fgenesh1_pg.C_chr_3003861 SRF-TF
4988887 fgenesh1_pg.C_chr_8000660 SRF-TF
4993084 fgenesh1_pg.C_chr_10000261 SRF-TF
4994355 fgenesh1_pg.C_chr_10001532 SRF-TF
4998597 estExt_fgenesh1_pg.C_chr_14390 K-box SRF-TF
5000201 estExt_fgenesh1_pg.C_chr_22615 K-box SRF-TF
5004717 estExt_fgenesh1_pg.C_chr_42718 K-box SRF-TF
5004841 estExt_fgenesh1_pg.C_chr_42947 K-box SRF-TF
5005818 estExt_fgenesh1_pg.C_chr_52201 SRF-TF
5009680 estExt_fgenesh1_pg.C_chr_91444 K-box SRF-TF
5030927 Sb10g004390 K-box SRF-TF
5031154 Sb10g007810 SRF-TF
5032264 Sb10g029810 K-box SRF-TF
5032860 Sb02g006700 SRF-TF
5037025 Sb03g041860 K-box SRF-TF
5037109 Sb03g043520 SRF-TF
5041889 Sb06g017660 K-box SRF-TF
5054501 Sb04g000500 K-box SRF-TF
5059023 Sb07g026180 SRF-TF

General references

Jack, T. 2001. Plant development going MADS. Plant Mol. Biol. 46(5):515-20 PUBMEDID:11516144
Nam, J; dePamphilis, CW; Ma, H; Nei, M. 2003. Antiquity and evolution of the MADS-box gene family controlling flower development in plants. Mol. Biol. Evol. 20(9):1435-47 PUBMEDID:12777513
Nam, J; Kim, J; Lee, S; An, G; Ma, H; Nei, M. 2004. Type I MADS-box genes have experienced faster birth-and-death evolution than type II MADS-box genes in angiosperms. Proc. Natl. Acad. Sci. U.S.A. 101(7):1910-5 PUBMEDID:14764899
Ng, M; Yanofsky, MF. 2001. Function and evolution of the plant MADS-box gene family. Nat. Rev. Genet. 2(3):186-95 PUBMEDID:11256070
Riechmann, JL; Meyerowitz, EM. 1997. MADS domain proteins in plant development. Biol. Chem. 378(10):1079-101 PUBMEDID:9372178
Shore, P; Sharrocks, AD. 1995. The MADS-box family of transcription factors. Eur. J. Biochem. 229(1):1-13 PUBMEDID:7744019
West, AG; Sharrocks, AD. 1999. MADS-box transcription factors adopt alternative mechanisms for bending DNA. J. Mol. Biol. 286(5):1311-23 PUBMEDID:10064699