Plant Transcription factor database - Universität Potsdam
version: 3.0

Oryza sativa subsp. japonica bHLH Family

Description

Buck & Atchley. 2003: The basic helix-loop-helix (bHLH) family of proteins is a group of functionally diverse transcription factors found in both plants and animals. These proteins evolved early in eukaryotic cells before the split of animals and plants, but appear to function in lsquoplant-specificrsquo or lsquoanimal-specificrsquo processes. In animals bHLH proteins are involved in regulation of a wide variety of essential developmental processes. On the contrary, bHLH proteins have not been extensively studied in plants. Those that have been characterized function in anthocyanin biosynthesis, phytochrome signaling, globulin expression, fruit dehiscence, carpel and epidermal development.

Members of this family
  SHOULD possess HLH domain

Domain alignments

Benchmark against A. thaliana

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

The gold standard reported 154 members for this family, 122 of which are present in ArabTFDB, giving a PPV of 0.92. Thirty-two additional members not present in ArabTFDB might be false negatives, giving a Sensitivity of 0.80.

This family is also present in:

References

There are 195 gene models in this family



Gene modelDescriptionDomains
LOC_Os01g01840.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g01870.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g02110.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g06640.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os01g06640.2 basic helix-loop-helix, putative, expressed HLH
LOC_Os01g09900.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g09930.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g09990.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g09990.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g11910.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os01g13460.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g18290.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g18290.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g18870.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g33400.1 helix-loop-helix DNA-binding domain containing protein ACT HLH
LOC_Os01g38610.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g39330.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g39480.1 anthocyanin regulatory Lc protein, putative HLH
LOC_Os01g39580.1 anthocyanin regulatory Lc protein, putative HLH
LOC_Os01g50940.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g51140.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g51140.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g56690.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g57580.1 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os01g61480.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g67480.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g68700.1 BHLH transcription factor, putative, expressed HLH
LOC_Os01g68700.2 BHLH transcription factor, putative, expressed HLH
LOC_Os01g70310.1 inducer of CBF expression 2, putative, expressed HLH
LOC_Os01g70310.2 inducer of CBF expression 2, putative, expressed HLH
LOC_Os01g72370.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g72370.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os01g72370.3 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g02480.1 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os02g02480.2 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os02g02480.3 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os02g02820.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g12820.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g13670.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os02g15760.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os02g23823.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g34320.1 basic helix-loop-helix, putative HLH
LOC_Os02g35660.1 PTF1, putative, expressed HLH
LOC_Os02g39140.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g46560.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os02g47660.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os02g48060.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g49480.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g51320.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os02g52190.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os02g55250.1 BHLH transcription factor, putative HLH
LOC_Os02g56140.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g03000.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g04310.1 BHLH transcription factor, putative, expressed HLH
LOC_Os03g04310.2 BHLH transcription factor, putative, expressed HLH
LOC_Os03g08930.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os03g10770.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os03g12760.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os03g12940.1 OsFBO13 - F-box and other domain containing protein, expressed F-box HLH
LOC_Os03g12940.2 OsFBO13 - F-box and other domain containing protein, expressed F-box HLH
LOC_Os03g15440.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os03g17130.1 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os03g26210.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g26210.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g26210.3 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g39432.1 CPuORF31 - conserved peptide uORF-containing transcript, expressed HLH
LOC_Os03g39432.2 CPuORF31 - conserved peptide uORF-containing transcript, expressed HLH
LOC_Os03g42100.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os03g43810.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g46790.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os03g46860.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os03g51580.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g51910.1 basic helix-loop-helix protein, putative, expressed HLH
LOC_Os03g53020.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os03g55220.1 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os03g55220.2 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os03g55550.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os03g56950.1 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.2 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.3 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.4 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.5 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.6 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g56950.7 phytochrome-interacting factor 4, putative, expressed HLH
LOC_Os03g58330.1 BHLH transcription factor, putative, expressed HLH
LOC_Os03g58830.1 BEE 1, putative, expressed HLH
LOC_Os03g59670.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os04g23440.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g23550.1 basic helix-loop-helix family protein, putative, expressed HLH
LOC_Os04g28280.1 BEE 3, putative, expressed HLH
LOC_Os04g31290.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g35010.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g41229.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g41229.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g47040.1 anthocyanin regulatory Lc protein, putative, expressed HLH
LOC_Os04g47059.1 TRANSPARENT TESTA 8, putative, expressed HLH
LOC_Os04g47080.1 anthocyanin regulatory Lc protein, putative, expressed HLH
LOC_Os04g50090.1 helix-loop-helix DNA-binding protein, putative HLH
LOC_Os04g51070.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os04g52770.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g01256.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g01256.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g04740.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g04740.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g06520.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os05g07120.1 basic helix-loop-helix, putative, expressed ACT HLH
LOC_Os05g07120.2 basic helix-loop-helix, putative, expressed ACT HLH
LOC_Os05g11070.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os05g38140.1 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os05g46370.1 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os05g50900.1 helix-loop-helix DNA-binding protein, putative HLH
LOC_Os05g51820.1 helix-loop-helix DNA-binding protein, putative HLH
LOC_Os06g06900.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g08500.1 BHLH transcription factor, putative HLH
LOC_Os06g09370.1 PTF1, putative, expressed HLH
LOC_Os06g09370.2 PTF1, putative, expressed HLH
LOC_Os06g09370.3 PTF1, putative, expressed HLH
LOC_Os06g10820.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os06g12210.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g16400.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g16400.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g30090.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os06g33450.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g33450.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os06g37410.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os07g05010.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os07g05010.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os07g05010.3 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os07g09590.1 bHLH transcription factor, putative HLH
LOC_Os07g35870.1 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os07g35870.2 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os07g36460.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os07g39940.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os07g43530.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os07g43530.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os08g01700.1 basic helix-loop-helix family protein, putative, expressed HLH
LOC_Os08g04390.2 basic helix-loop-helix DND-binding domain containing protein, expressed HLH
LOC_Os08g33590.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os08g36740.1 bHelix-loop-helix transcription factor, putative HLH
LOC_Os08g37290.1 basic helix-loop-helix, putative, expressed HLH
LOC_Os08g37730.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os08g38080.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os08g38210.1 transcription factor BIM2, putative, expressed HLH
LOC_Os08g38210.2 transcription factor BIM2, putative, expressed HLH
LOC_Os08g38210.4 transcription factor BIM2, putative, expressed HLH
LOC_Os08g38210.5 transcription factor BIM2, putative, expressed HLH
LOC_Os08g39630.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os08g41320.1 BHLH transcription factor, putative, expressed HLH
LOC_Os08g42470.1 BEE 1, putative, expressed HLH
LOC_Os08g43070.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os09g24490.1 basic helix-loop-helix family protein, putative, expressed HLH
LOC_Os09g25040.1 joka8, putative, expressed HLH
LOC_Os09g28210.1 bHelix-loop-helix transcription factor, putative, expressed HLH
LOC_Os09g28900.1 basic helix-loop-helix, putative HLH
LOC_Os09g29360.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os09g29830.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os09g29830.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os09g29830.3 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os09g29930.1 transcription factor BIM2, putative, expressed HLH
LOC_Os09g29930.2 transcription factor BIM2, putative, expressed HLH
LOC_Os09g29930.3 transcription factor BIM2, putative, expressed HLH
LOC_Os09g31300.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os09g31300.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os09g32510.1 BHLH transcription factor, putative, expressed HLH
LOC_Os09g32510.2 BHLH transcription factor, putative, expressed HLH
LOC_Os09g32510.3 BHLH transcription factor, putative, expressed HLH
LOC_Os09g32510.4 BHLH transcription factor, putative, expressed HLH
LOC_Os09g32510.5 BHLH transcription factor, putative, expressed HLH
LOC_Os09g33580.1 BEE 1, putative, expressed HLH
LOC_Os09g33580.2 BEE 1, putative, expressed HLH
LOC_Os09g34330.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os10g01530.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os10g23050.1 helix-loop-helix DNA-binding protein, putative, expressed HLH
LOC_Os10g39750.1 inducer of CBF expression 2, putative, expressed HLH
LOC_Os10g40740.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os10g42430.1 transcription factor MYC7E, putative, expressed HLH
LOC_Os11g15210.1 anthocyanin regulatory Lc protein, putative HLH
LOC_Os11g32100.1 inducer of CBF expression 1, putative, expressed HLH
LOC_Os11g38870.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os11g38870.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os11g39000.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os11g39000.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os11g41640.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g31430.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g32400.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g39850.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g40590.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g40630.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g40710.1 helix-loop-helix DNA-binding domain containing protein HLH
LOC_Os12g40730.1 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g41650.2 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g41650.3 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g41650.4 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g41650.5 helix-loop-helix DNA-binding domain containing protein, expressed HLH
LOC_Os12g43620.1 helix-loop-helix DNA-binding domain containing protein HLH

General references

Buck, MJ; Atchley, WR. 2003. Phylogenetic analysis of plant basic helix-loop-helix proteins. J. Mol. Evol. 56(6):742-50 PUBMEDID:12911037
Heim, MA; Jakoby, M; Werber, M; Martin, C; Weisshaar, B; Bailey, PC. 2003. The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. Mol. Biol. Evol. 20(5):735-47 PUBMEDID:12679534
Littlewood, TD; Evan, GI. 1995. Transcription factors 2: helix-loop-helix. Protein Profile 2(6):621-702 PUBMEDID:7553065
Massari, ME; Murre, C. 2000. Helix-loop-helix proteins: regulators of transcription in eucaryotic organisms. Mol. Cell. Biol. 20(2):429-40 PUBMEDID:10611221
Quattrocchio, F; Wing, JF; van der Woude, K; Mol, JN; Koes, R. 1998. Analysis of bHLH and MYB domain proteins: species-specific regulatory differences are caused by divergent evolution of target anthocyanin genes. Plant J. 13(4):475-88 PUBMEDID:9680994

Specific references

Jung, KH; Han, MJ; Lee, YS; Kim, YW; Hwang, I; Kim, MJ; Kim, YK; Nahm, BH; An, G. 2005. Rice Undeveloped Tapetum1 is a major regulator of early tapetum development. Plant Cell 17(10):2705-22 PUBMEDID:16141453
Kiribuchi, K; Jikumaru, Y; Kaku, H; Minami, E; Hasegawa, M; Kodama, O; Seto, H; Okada, K; Nojiri, H; Yamane, H. 2005. Involvement of the basic helix-loop-helix transcription factor RERJ1 in wounding and drought stress responses in rice plants. Biosci. Biotechnol. Biochem. 69(5):1042-4 PUBMEDID:15914931
Wang, YJ; Zhang, ZG; He, XJ; Zhou, HL; Wen, YX; Dai, JX; Zhang, JS; Chen, SY. 2003. A rice transcription factor OsbHLH1 is involved in cold stress response. Theor. Appl. Genet. 107(8):1402-9 PUBMEDID:12920519
Yi, K; Wu, Z; Zhou, J; Du, L; Guo, L; Wu, Y; Wu, P. 2005. OsPTF1, a novel transcription factor involved in tolerance to phosphate starvation in rice. Plant Physiol. 138(4):2087-96 PUBMEDID:16006597