Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa C2C2-GATA Family

Description

Lowry & Atchley. 2000: The GATA-binding transcription factors comprise a protein family whose members contain either one or two highly conserved zinc finger DNA-binding domains. Members of this group have been identified in organisms ranging from cellular slime mold to vertebrates, including plants, fungi, nematodes, insects, and echinoderms.

Members of this family
  SHOULD possess GATA domain

Domain alignments

Benchmark against A. thaliana

The Sensitivity and Positive Predictive Value (PPV) were assessed for this family. The data reported by Reyes et al. 2004 for A. thaliana were taken as gold standard.

The gold standard reported 29 members for this family, 29 of which are present in ArabTFDB, giving a PPV and a Sensitivity of 1.00.

This family is also present in:

References

There are 36 gene models in this family



Gene modelDescriptionDomains
171756 gw1.I.356.1 GATA
219245 gw1.VII.3550.1 GATA
228902 gw1.X.3599.1 GATA
260610 gw1.XVIII.1151.1 GATA
264796 gw1.118.284.1 GATA
286296 gw1.40.56.1 GATA
294112 gw1.66.785.1 GATA
409569 gw1.II.904.1 GATA
411182 gw1.II.2517.1 GATA
414447 gw1.III.1550.1 GATA
551709 eugene3.00021024 CCT CCT_2 GATA tify
558983 eugene3.00050598 GATA
558987 eugene3.00050602 CCT CCT_2 GATA tify
562360 eugene3.00070298 CCT CCT_2 GATA tify
562361 eugene3.00070299 CCT CCT_2 GATA tify
563735 eugene3.00080330 GATA
571221 eugene3.00130585 GATA
573903 eugene3.00190377 GATA
577294 eugene3.00170036 CCT CCT_2 GATA tify
577295 eugene3.00170037 GATA
586229 eugene3.191840001 GATA
589916 eugene3.00290099 GATA
593881 eugene3.00570125 GATA
643943 grail3.0003097601 CCT CCT_2 GATA
649333 grail3.0001038001 GATA
653902 grail3.0013019801 GATA
655400 grail3.0019026502 GATA
664385 grail3.0061016001 GATA
758356 fgenesh4_pg.C_LG_III001898 GATA
782963 fgenesh4_pg.C_scaffold_77000039 GATA
789604 fgenesh4_pg.C_scaffold_711000001 GATA
802380 fgenesh4_pm.C_LG_VI000727 GATA
814881 estExt_fgenesh4_pg.C_LG_I0470 GATA
822568 estExt_fgenesh4_pg.C_LG_X2015 GATA
828052 estExt_fgenesh4_pg.C_1330084 GATA
833910 estExt_fgenesh4_pm.C_LG_X0958 CCT CCT_2 GATA tify

General references

Lowry, JA; Atchley, WR. 2000. Molecular evolution of the GATA family of transcription factors: conservation within the DNA-binding domain. J. Mol. Evol. 50(2):103-15 PUBMEDID:10684344
Omichinski, JG; Clore, GM; Schaad, O; Felsenfeld, G; Trainor, C; Appella, E; Stahl, SJ; Gronenborn, AM. 1993. NMR structure of a specific DNA complex of Zn-containing DNA binding domain of GATA-1. Science 261(5120):438-46 PUBMEDID:8332909
Takatsuji, H. 1998. Zinc-finger transcription factors in plants. Cell. Mol. Life Sci. 54(6):582-96 PUBMEDID:9676577