Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa 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 159 gene models in this family



Gene modelDescriptionDomains
171877 gw1.I.477.1 HLH
173295 gw1.I.1895.1 HLH
174909 gw1.I.3509.1 HLH
175654 gw1.I.4254.1 HLH
180347 gw1.I.8947.1 HLH
195904 gw1.IV.993.1 HLH
200898 gw1.IX.1363.1 HLH
202289 gw1.IX.2754.1 HLH
205424 gw1.V.825.1 HLH
207275 gw1.V.2676.1 HLH
208030 gw1.V.3431.1 HLH
217086 gw1.VII.1391.1 HLH
217371 gw1.VII.1676.1 HLH
219279 gw1.VII.3584.1 HLH
240180 gw1.XIII.429.1 HLH
241261 gw1.XIII.1510.1 HLH
245196 gw1.XIV.1939.1 HLH
246497 gw1.XIV.3240.1 HLH
251836 gw1.XV.1272.1 HLH
255366 gw1.XVI.1305.1 HLH
255697 gw1.XVI.1636.1 HLH
258469 gw1.XVII.460.1 HLH
259906 gw1.XVIII.447.1 HLH
259909 gw1.XVIII.450.1 HLH
272567 gw1.152.36.1 HLH
277465 gw1.197.14.1 HLH
294731 gw1.70.184.1 HLH
409442 gw1.II.777.1 HLH
410027 gw1.II.1362.1 HLH
410303 gw1.II.1638.1 HLH
410631 gw1.II.1966.1 HLH
411544 gw1.II.2879.1 HLH
416894 gw1.VI.1267.1 HLH
418653 gw1.VIII.81.1 HLH
421100 gw1.VIII.2528.1 HLH
423606 gw1.29.118.1 HLH
551748 eugene3.00021063 HLH
552325 eugene3.00021640 HLH
553223 eugene3.00002538 HLH
554564 eugene3.00031197 HLH
554707 eugene3.00031340 HLH
554947 eugene3.00031580 HLH
555444 eugene3.00040157 HLH
555688 eugene3.00040401 HLH
557744 eugene3.00091004 HLH
558938 eugene3.00050553 HLH
559634 eugene3.00051249 HLH
561062 eugene3.00061021 HLH
566573 eugene3.00101131 HLH
566736 eugene3.00101294 HLH
569039 eugene3.00111053 HLH
570544 eugene3.00121197 HLH
570545 eugene3.00121198 HLH
572046 eugene3.00140091 HLH
572918 eugene3.00140963 HLH
574335 eugene3.00190809 HLH
575141 eugene3.00150536 HLH
575437 eugene3.00150832 HLH
575731 eugene3.00151126 HLH
576309 eugene3.00160444 HLH
576485 eugene3.00160620 HLH
580804 eugene3.01230094 HLH
581594 eugene3.01310021 HLH
589350 eugene3.00280086 HLH
591967 eugene3.00400312 HLH
591979 eugene3.00400324 HLH
591980 eugene3.00400325 HLH
592189 eugene3.00410032 HLH
593925 eugene3.00570169 HLH
639895 grail3.0161002301 HLH
646081 grail3.0096005801 HLH
647678 grail3.0093003701 HLH
649402 grail3.0001043902 HLH
650581 grail3.0026000601 HLH
651077 grail3.0027005901 HLH
651728 grail3.0002039701 HLH
652858 grail3.0023007901 HLH
655137 grail3.0019005201 HLH
655501 grail3.0019034401 HLH
656060 grail3.0049018001 HLH
656276 grail3.0010003401 HLH
658381 grail3.0144001102 HLH
659484 grail3.0022011201 HLH
660506 grail3.0091010901 HLH
661736 grail3.0042007702 HLH
666226 grail3.0043003501 HLH
667015 grail3.0005058901 HLH
669610 grail3.0020030701 HLH
669834 grail3.0073012202 HLH
673557 grail3.0165001601 HLH
674749 grail3.2022000101 HLH
676550 grail3.0029018401 HLH
710215 estExt_Genewise1_v1.C_LG_II1087 HLH
710327 estExt_Genewise1_v1.C_LG_II1370 HLH
717415 estExt_Genewise1_v1.C_LG_VI1670 HLH
745734 estExt_Genewise1_v1.C_1550153 HLH
750960 fgenesh4_pg.C_LG_I000563 HLH
751129 fgenesh4_pg.C_LG_I000732 HLH
751415 fgenesh4_pg.C_LG_I001018 HLH
753683 fgenesh4_pg.C_LG_I003286 HLH
754747 fgenesh4_pg.C_LG_II000927 HLH
754916 fgenesh4_pg.C_LG_II001096 HLH
754964 fgenesh4_pg.C_LG_II001144 HLH
755290 fgenesh4_pg.C_LG_II001470 HLH
755405 fgenesh4_pg.C_LG_II001585 HLH
756089 fgenesh4_pg.C_LG_II002269 HLH
756351 fgenesh4_pg.C_LG_II002531 HLH
758890 fgenesh4_pg.C_LG_IV000518 HLH
758944 fgenesh4_pg.C_LG_IV000572 HLH
759048 fgenesh4_pg.C_LG_IV000676 HLH
760479 fgenesh4_pg.C_LG_V000531 HLH
762251 fgenesh4_pg.C_LG_VI000561 HLH
762253 fgenesh4_pg.C_LG_VI000563 HLH
762254 fgenesh4_pg.C_LG_VI000564 HLH
762524 fgenesh4_pg.C_LG_VI000834 HLH
765981 fgenesh4_pg.C_LG_VIII000995 HLH
766018 fgenesh4_pg.C_LG_VIII001032 HLH
766430 fgenesh4_pg.C_LG_VIII001444 HLH
767688 fgenesh4_pg.C_LG_IX000739 HLH
767717 fgenesh4_pg.C_LG_IX000768 FF HLH
768275 fgenesh4_pg.C_LG_IX001326 HLH
768452 fgenesh4_pg.C_LG_IX001503 HLH
769217 fgenesh4_pg.C_LG_X000707 HLH
769699 fgenesh4_pg.C_LG_X001189 HLH
772846 fgenesh4_pg.C_LG_XII000621 HLH
773000 fgenesh4_pg.C_LG_XII000775 HLH
773249 fgenesh4_pg.C_LG_XII001024 HLH
776365 fgenesh4_pg.C_LG_XV000793 HLH
776625 fgenesh4_pg.C_LG_XV001053 HLH
780270 fgenesh4_pg.C_LG_XIX000409 HLH
780590 fgenesh4_pg.C_LG_XIX000729 HLH
783947 fgenesh4_pg.C_scaffold_120000087 HLH
783948 fgenesh4_pg.C_scaffold_120000088 HLH
785226 fgenesh4_pg.C_scaffold_142000034 HLH
796703 fgenesh4_pg.C_scaffold_57000082 HLH
798077 fgenesh4_pm.C_LG_I001080 HLH
801457 fgenesh4_pm.C_LG_V000549 HLH
801766 fgenesh4_pm.C_LG_VI000113 HLH
804948 fgenesh4_pm.C_LG_X000254 HLH
805855 fgenesh4_pm.C_LG_XI000130 HLH
806243 fgenesh4_pm.C_LG_XII000063 HLH
807406 fgenesh4_pm.C_LG_XIV000216 HLH
808364 fgenesh4_pm.C_LG_XVI000092 HLH
816389 estExt_fgenesh4_pg.C_LG_II0961 HLH
816406 estExt_fgenesh4_pg.C_LG_II0987 HLH
817360 estExt_fgenesh4_pg.C_LG_III1049 HLH
819306 estExt_fgenesh4_pg.C_LG_VI1046 HLH
822496 estExt_fgenesh4_pg.C_LG_X1873 HLH
823035 estExt_fgenesh4_pg.C_LG_XI1119 HLH
823340 estExt_fgenesh4_pg.C_LG_XII0720 HLH
823435 estExt_fgenesh4_pg.C_LG_XII1027 HLH
823774 estExt_fgenesh4_pg.C_LG_XIII0395 HLH
824091 estExt_fgenesh4_pg.C_LG_XIV0512 HLH
826895 estExt_fgenesh4_pg.C_410126 HLH
827839 estExt_fgenesh4_pg.C_1240042 HLH
828347 estExt_fgenesh4_pg.C_1520010 HLH
830092 estExt_fgenesh4_pm.C_LG_II0214 HLH
833648 estExt_fgenesh4_pm.C_LG_X0542 HLH
836925 estExt_fgenesh4_pm.C_1180004 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