Plant Transcription factor database - Universität Potsdam
version: 3.0

Oryza sativa subsp. japonica 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 97 gene models in this family



Gene modelDescriptionDomains
LOC_Os01g10504.1 OsMADS3 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g10504.2 OsMADS3 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g10504.3 OsMADS3 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g11510.1 OsMADS91 - MADS-box family gene with M-beta type-box SRF-TF
LOC_Os01g18420.1 OsMADS88 - MADS-box family gene with M-gamma type-box SRF-TF
LOC_Os01g18440.1 OsMADS89 - MADS-box family gene with M-gamma type-box SRF-TF
LOC_Os01g23760.1 OsMADS93 - MADS-box family gene with M-beta type-box SRF-TF
LOC_Os01g23770.1 OsMADS94 - MADS-box family gene with M-beta type-box SRF-TF
LOC_Os01g52680.1 OsMADS32 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g66030.1 OsMADS2 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g66030.2 OsMADS2 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g66290.1 OsMADS21 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g66290.2 OsMADS21 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os01g67890.1 OsMADS96 - MADS-box family gene with M-beta type-box SRF-TF
LOC_Os01g68560.1 OsMADS98 - MADS-box family gene with M-beta type-box, expressed SRF-TF
LOC_Os01g69850.1 OsMADS65 - MADS-box family gene with MIKC* type-box, expressed SRF-TF
LOC_Os01g74440.1 OsMADS79 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os02g01355.1 MADS-box transcription factor, putative, expressed K-box SRF-TF
LOC_Os02g01365.1 expressed protein K-box SRF-TF
LOC_Os02g06860.1 OsMADS80 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os02g07430.1 OsMADS29 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g07430.2 OsMADS29 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g36924.1 OsMADS27 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g45770.1 OsMADS6 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g49840.1 OsMADS57 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g49840.2 OsMADS57 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g49840.3 OsMADS57 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os02g49840.4 OsMADS57 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os02g52340.1 OsMADS22 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g03100.1 OsMADS50 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os03g08754.1 OsMADS47 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g08754.2 OsMADS47 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g11614.1 OsMADS1 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g14850.1 OsMADS72 - MADS-box family gene with M-alpha type-box, expressed SRF-TF
LOC_Os03g37670.1 OsMADS86 - MADS-box family gene with M-gamma type-box SRF-TF
LOC_Os03g38610.1 OsMADS87 - MADS-box family gene with M-gamma type-box SRF-TF
LOC_Os03g54160.1 OsMADS14 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g54160.2 OsMADS14 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os03g54170.1 OsMADS34 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os04g23910.1 OsMADS25 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os04g25870.1 OsMADS84 - MADS-box family gene with M-gamma type-box SRF-TF
LOC_Os04g31804.1 OsMADS64 - MADS-box family gene with M-alpha type-box, expressed SRF-TF
LOC_Os04g38770.1 OsMADS61 - MADS-box family gene with MIKCc type-box SRF-TF
LOC_Os04g49150.1 OsMADS17 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os04g52410.1 OsMADS31 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os04g52410.2 OsMADS31 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g11380.1 OsMADS66 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os05g11380.2 OsMADS66 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os05g11414.1 OsMADS58 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g11414.2 OsMADS58 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g11414.3 OsMADS58 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g23780.1 OsMADS70 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os05g34940.1 OsMADS4 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g34940.2 OsMADS4 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os05g34940.3 OsMADS4 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os06g01890.1 MADS-box transcription factor, putative, expressed K-box SRF-TF
LOC_Os06g06750.1 OsMADS5 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os06g11330.1 OsMADS55 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os06g11970.1 OsMADS63 - MADS-box family gene with MIKC* type-box, expressed SRF-TF
LOC_Os06g22760.1 OsMADS71 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os06g23950.1 OsMADS59 - MADS-box family gene with MIKCc type-box SRF-TF
LOC_Os06g30810.1 OsMADS75 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os06g30830.1 OsMADS76 - MADS-box family gene with M-alpha type-box, expressed SRF-TF
LOC_Os06g45650.1 OsMADS30 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os06g49840.1 OsMADS16 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os06g49840.2 OsMADS16 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os07g01820.1 OsMADS15 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os07g01820.2 OsMADS15 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os07g01820.3 OsMADS15 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os07g01820.4 OsMADS15 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os07g01820.6 OsMADS15 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os07g04170.1 OsMADS90 - MADS-box family gene with M-beta type-box, expressed SRF-TF
LOC_Os07g41370.1 OsMADS18 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os08g02070.1 OsMADS26 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os08g33488.1 OsMADS23 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os08g38590.1 OsMADS62 - MADS-box family gene with MIKC* type-box, expressed SRF-TF
LOC_Os08g41950.1 OsMADS7 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os08g41950.2 OsMADS7 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os08g41960.1 OsMADS37 - MADS-box family gene with MIKC* type-box, expressed SRF-TF
LOC_Os09g02780.1 OsMADS77 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os09g02830.1 OsMADS78 - MADS-box family gene with M-alpha type-box SRF-TF
LOC_Os09g32948.1 OsMADS8 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os10g39130.1 OsMADS56 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os10g39130.2 OsMADS56 - MADS-box family gene with MIKCc type-box, expressed SRF-TF
LOC_Os11g12360.1 transposon protein, putative, CACTA, En/Spm sub-class Peptidase_C48 SRF-TF Transposase_21
LOC_Os11g43740.1 OsMADS68 - MADS-box family gene with MIKC* type-box, expressed SRF-TF
LOC_Os12g10520.1 OsMADS33 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10520.2 OsMADS33 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10540.1 OsMADS13 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10540.2 OsMADS13 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10540.3 OsMADS13 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10540.4 OsMADS13 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g10540.5 OsMADS13 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g21850.1 OsMADS73 - MADS-box family gene with M-alpha type-box, expressed SRF-TF
LOC_Os12g21880.1 OsMADS74 - MADS-box family gene with M-alpha type-box, expressed SRF-TF
LOC_Os12g31748.1 OsMADS20 - MADS-box family gene with MIKCc type-box, expressed K-box SRF-TF
LOC_Os12g31748.2 OsMADS20 - MADS-box family gene with MIKCc type-box, expressed K-box 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

Specific references

Agrawal, GK; Abe, K; Yamazaki, M; Miyao, A; Hirochika, H. 2005. Conservation of the E-function for floral organ identity in rice revealed by the analysis of tissue culture-induced loss-of-function mutants of the OsMADS1 gene. Plant Mol. Biol. 59(1):125-35 PUBMEDID:16217607
Kang, HG; Jang, S; Chung, JE; Cho, YG; An, G. 1997. Characterization of two rice MADS box genes that control flowering time. Mol. Cells 7(4):559-66 PUBMEDID:9339904