Plant Transcription factor database - Universität Potsdam
version: 3.0

Sorghum bicolor 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 148 gene models in this family



Gene modelDescriptionDomains
126271 fgenesh1_pm.C_chr_3001302 HLH
130796 fgenesh1_pm.C_scaffold_10000008 HLH
146132 estExt_fgenesh1_pm.C_chr_80621 HLH
147023 estExt_fgenesh1_pm.C_22500001 HLH
147184 estExt_fgenesh1_kg.C_chr_10161 HLH
148437 estExt_fgenesh1_kg.C_chr_30427 HLH
148691 estExt_fgenesh1_kg.C_chr_40248 HLH
149272 estExt_fgenesh1_kg.C_chr_70056 HLH
4020828 gw1.4.3452.1 HLH
4111869 gw1.10.12535.1 HLH
4756867 estExt_Genewise1.C_chr_46835 HLH
4773310 e_gw1.1.1712.1 HLH
4785577 e_gw1.2.1870.1 HLH
4805882 e_gw1.3.20902.1 HLH
4814144 e_gw1.4.697.1 HLH
4821883 e_gw1.5.13548.1 HLH
4828678 e_gw1.6.12502.1 HLH
4852088 e_gw1.9.16694.1 HLH
4867429 estExt_Genewise1Plus.C_chr_10973 HLH
4869866 estExt_Genewise1Plus.C_chr_17395 HLH
4871762 estExt_Genewise1Plus.C_chr_110587 F-box HLH
4894374 estExt_Genewise1Plus.C_chr_92244 HLH
4898750 estExt_Genewise1Plus.C_chr_108272 HLH
4964952 fgenesh1_pg.C_chr_1001554 HLH Protamine_P1
4966118 fgenesh1_pg.C_chr_1002720 HLH
4966119 fgenesh1_pg.C_chr_1002721 HLH
4968501 fgenesh1_pg.C_chr_1005103 HLH
4970783 fgenesh1_pg.C_chr_2002099 HLH
4971061 fgenesh1_pg.C_chr_2002377 HLH
4971348 fgenesh1_pg.C_chr_2002664 HLH
4971410 fgenesh1_pg.C_chr_2002726 HLH
4973180 fgenesh1_pg.C_chr_3000295 HLH
4974356 fgenesh1_pg.C_chr_3001471 HLH
4978886 fgenesh1_pg.C_chr_4001719 HLH
4979759 fgenesh1_pg.C_chr_4002592 HLH
4982587 fgenesh1_pg.C_chr_5001947 HLH
4984953 fgenesh1_pg.C_chr_6001840 HLH
4985153 fgenesh1_pg.C_chr_6002040 HLH
4985154 fgenesh1_pg.C_chr_6002041 HLH
4985997 fgenesh1_pg.C_chr_7000087 HLH
4987530 fgenesh1_pg.C_chr_7001620 HLH
4987797 fgenesh1_pg.C_chr_7001887 HLH
4987865 fgenesh1_pg.C_chr_7001955 HLH
4988061 fgenesh1_pg.C_chr_7002151 HLH
4989889 fgenesh1_pg.C_chr_8001662 HLH
4989890 fgenesh1_pg.C_chr_8001663 HLH
4989891 fgenesh1_pg.C_chr_8001664 HLH
4989893 fgenesh1_pg.C_chr_8001666 HLH
4990591 fgenesh1_pg.C_chr_9000319 HLH
4990965 fgenesh1_pg.C_chr_9000693 HLH
4992404 fgenesh1_pg.C_chr_9002132 HLH
4993294 fgenesh1_pg.C_chr_10000471 HLH
4996124 fgenesh1_pg.C_scaffold_2273000001 HLH
4997964 estExt_fgenesh1_pg.C_chr_13407 HLH
4998933 estExt_fgenesh1_pg.C_chr_14933 HLH
5000037 estExt_fgenesh1_pg.C_chr_22307 HLH
5000135 estExt_fgenesh1_pg.C_chr_22502 HLH
5000178 estExt_fgenesh1_pg.C_chr_22584 HLH
5000251 estExt_fgenesh1_pg.C_chr_22696 HLH
5001803 estExt_fgenesh1_pg.C_chr_31272 HLH
5002027 estExt_fgenesh1_pg.C_chr_31892 HLH
5002187 estExt_fgenesh1_pg.C_chr_32190 HLH
5002432 estExt_fgenesh1_pg.C_chr_32661 HLH
5003074 estExt_fgenesh1_pg.C_chr_33753 HLH
5003442 estExt_fgenesh1_pg.C_chr_40111 HLH
5004002 estExt_fgenesh1_pg.C_chr_41340 HLH
5004205 estExt_fgenesh1_pg.C_chr_41812 HLH
5006733 estExt_fgenesh1_pg.C_chr_61817 HLH
5007458 estExt_fgenesh1_pg.C_chr_70317 HLH
5009770 estExt_fgenesh1_pg.C_chr_91613 HLH
5028089 Sb01g003830 HLH
5028369 Sb01g009380 HLH
5028518 Sb01g012250 HLH
5028521 Sb01g012280 HLH
5030174 Sb01g040450 HLH
5031173 Sb10g008000 HLH
5031831 Sb10g022530 HLH
5032550 Sb02g002760 HLH
5032765 Sb02g005713 HLH
5033802 Sb02g024750 HLH
5033987 Sb02g027210 HLH
5033999 Sb02g027430 HLH
5034468 Sb02g035870 HLH
5034588 Sb02g037990 HLH
5035306 Sb03g006500 HLH
5035308 Sb03g006510 HLH
5035419 Sb03g008290 HLH
5035441 Sb03g008570 HLH
5035632 Sb03g011940 HLH
5036096 Sb03g025860 HLH
5036722 Sb03g036100 HLH
5037828 Sb04g007795 HLH
5037869 Sb04g008260 HLH
5038406 Sb04g022260 HLH
5038889 Sb04g030850 HLH
5039192 Sb04g036450 HLH
5040921 Sb05g025230 HLH
5041565 Sb06g012030 HLH
5041830 Sb06g016740 HLH
5041879 Sb06g017460 ACT HLH
5042546 Sb06g028750 HLH
5042869 Sb07g000900 HLH
5042961 Sb07g002200 HLH
5042962 Sb07g002210 HLH
5043754 Sb07g021170 ACT HLH
5043903 Sb07g023280 HLH
5044031 Sb07g025310 HLH
5044032 Sb07g025320 HLH
5044033 Sb07g025330 HLH
5044260 Sb07g028860 HLH
5044267 Sb07g028945 HLH
5045159 Sb08g017040 ACT HLH
5045388 Sb08g019780 HLH
5045426 Sb08g020275 HLH
5045432 Sb08g020330 HLH
5045959 Sb09g004820 HLH
5047102 Sb09g030060 HLH
5047250 Sb0012s004780 HLH
5047952 Sb01g005130 HLH
5048016 Sb01g006190 HLH
5048096 Sb01g007440 HLH
5048174 Sb01g008570 HLH
5048407 Sb01g012260 ACT HLH
5048494 Sb01g013843 HLH
5050047 Sb01g044640 HLH
5050285 Sb01g048400 HLH
5050648 Sb02g004570 HLH
5051325 Sb02g027460 HLH
5051793 Sb02g035580 HLH
5052081 Sb02g040140 HLH
5052346 Sb03g000570 HLH
5052416 Sb03g001730 HLH
5052638 Sb03g005250 HLH
5052811 Sb03g008560 HLH
5053587 Sb03g032520 HLH
5054245 Sb03g043690 HLH
5055551 Sb04g027930 HLH
5055639 Sb04g029270 HLH
5055772 Sb04g031250 HLH
5056046 Sb04g035890 HLH
5056731 Sb05g023730 HLH
5057415 Sb06g020810 HLH
5057670 Sb06g025060 HLH
5059046 Sb07g026610 HLH
5059794 Sb08g021000 HLH
5060240 Sb09g006220 HLH
5061412 Sb10g005650 HLH
5061446 Sb10g006250 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