Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis lyrata 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 138 gene models in this family



Gene modelDescriptionDomains
312099 fgenesh1_pm.C_scaffold_1000879 HLH
312791 fgenesh1_pm.C_scaffold_1001571 HLH Pkinase Pkinase_Tyr RIO1
313705 fgenesh1_pm.C_scaffold_1002485 HLH
319546 fgenesh1_pm.C_scaffold_3002562 HLH
324207 fgenesh1_pm.C_scaffold_5001751 HLH
327641 fgenesh1_pm.C_scaffold_6002861 HLH
327725 fgenesh1_pm.C_scaffold_6002945 HLH
329503 fgenesh1_pm.C_scaffold_7001730 HLH
332092 fgenesh1_pm.C_scaffold_8001435 HLH
333565 fgenesh1_pg.C_scaffold_1000130 HLH
333922 fgenesh1_pg.C_scaffold_1000487 HLH
335492 fgenesh1_pg.C_scaffold_1002057 HLH
337131 fgenesh1_pg.C_scaffold_1003696 HLH
347878 fgenesh1_pg.C_scaffold_5001270 HLH
348075 fgenesh1_pg.C_scaffold_5001467 HLH
353119 fgenesh1_pg.C_scaffold_7000292 HLH
354244 fgenesh1_pg.C_scaffold_7001417 HLH
354651 fgenesh1_pg.C_scaffold_7001824 HLH
358332 fgenesh1_pg.C_scaffold_8002119 HLH
358733 fgenesh1_pg.C_scaffold_8002520 HLH
470147 fgenesh2_kg.1__101__AT1G01260.1 HLH
470281 fgenesh2_kg.1__235__AT1G03040.1 HLH
470588 fgenesh2_kg.1__542__AT1G05805.1 HLH
471048 fgenesh2_kg.1__1002__AT1G09530.2 HLH
471177 fgenesh2_kg.1__1131__AT1G10586.1 HLH
471184 fgenesh2_kg.1__1138__AT1G10610.1 HLH
471403 fgenesh2_kg.1__1357__AT1G12540.1 HLH
472791 fgenesh2_kg.1__2745__AT1G26260.3 HLH
472979 fgenesh2_kg.1__2933__AT1G27740.1 HLH
474224 fgenesh2_kg.1__4178__AT1G51070.1 HLH
474229 fgenesh2_kg.1__4183__AT1G51140.1 HLH
474990 fgenesh2_kg.2__120__AT1G63650.2 HLH
475056 fgenesh2_kg.2__186__AT1G62975.1 HLH
475161 fgenesh2_kg.2__291__AT1G61660.1 HLH
475944 fgenesh2_kg.2__1074__AT1G68240.1 HLH
476008 fgenesh2_kg.2__1138__AT1G68810.1 HLH
476021 fgenesh2_kg.2__1151__AT1G68920.3 HLH
476029 fgenesh2_kg.2__1159__AT1G69010.1 HLH
476520 fgenesh2_kg.2__1650__AT1G73830.1 HLH
476585 fgenesh2_kg.2__1715__AT1G74500.1 HLH
479503 fgenesh2_kg.3__2204__AT3G19860.1 HLH
479653 fgenesh2_kg.3__2354__AT3G21330.1 HLH
479835 fgenesh2_kg.3__2536__AT3G23210.1 HLH
480366 fgenesh2_kg.3__3067__AT2G14760.1 HLH
480571 fgenesh2_kg.3__3272__AT2G16910.1 HLH
480739 fgenesh2_kg.3__3440__AT2G18300.2 HLH
481136 fgenesh2_kg.4__196__AT2G22750.1 HLH
481137 fgenesh2_kg.4__197__AT2G22760.1 HLH
481138 fgenesh2_kg.4__198__AT2G22770.1 HLH
481281 fgenesh2_kg.4__341__AT2G24260.1 HLH
481693 fgenesh2_kg.4__753__AT2G28160.1 HLH
482048 fgenesh2_kg.4__1108__AT2G31210.1 HLH
482049 fgenesh2_kg.4__1109__AT2G31220.1 HLH
483066 fgenesh2_kg.4__2126__AT2G40200.1 HLH
483321 fgenesh2_kg.4__2381__AT2G42300.1 HLH
483401 fgenesh2_kg.4__2461__AT2G43010.2 HLH
483415 fgenesh2_kg.4__2475__AT2G43140.1 HLH
483808 fgenesh2_kg.4__2868__AT2G46510.1 HLH
484332 fgenesh2_kg.5__324__AT3G25710.1 HLH
484449 fgenesh2_kg.5__441__AT3G26744.2 HLH
485129 fgenesh2_kg.5__1121__AT3G47640.1 HLH
485384 fgenesh2_kg.5__1376__AT3G50330.1 HLH
486116 fgenesh2_kg.5__2108__AT3G56770.1 HLH
486140 fgenesh2_kg.5__2132__AT3G56970.1 HLH
486233 fgenesh2_kg.5__2225__AT3G57800.1 HLH
486700 fgenesh2_kg.5__2692__AT3G61950.1 HLH
486946 fgenesh2_kg.6__80__AT5G01310.1 HIT HLH Macro
487795 fgenesh2_kg.6__929__AT5G09750.1 HLH
487890 fgenesh2_kg.6__1024__AT5G10570.1 HLH
489790 fgenesh2_kg.6__2924__AT4G09180.1 HLH
489834 fgenesh2_kg.6__2968__AT4G09820.1 HLH
490301 fgenesh2_kg.6__3435__AT4G02590.2 HLH
490556 fgenesh2_kg.6__3690__AT4G00120.1 HLH
491027 fgenesh2_kg.7__460__AT4G36060.2 HLH
491205 fgenesh2_kg.7__638__AT4G34530.1 HLH
491291 fgenesh2_kg.7__724__AT4G33880.1 HLH
491651 fgenesh2_kg.7__1084__AT4G30980.1 HLH
491763 fgenesh2_kg.7__1196__AT4G29930.1 HLH
492289 fgenesh2_kg.7__1722__AT4G25400.1 HLH
493087 fgenesh2_kg.7__2520__AT4G17880.1 HLH
493462 fgenesh2_kg.7__2895__AT4G14410.2 HLH
493759 fgenesh2_kg.7__3192__AT5G37800.1 HLH
493847 fgenesh2_kg.7__3280__AT5G41315.1 HLH
494310 fgenesh2_kg.8__126__AT5G46690.1 HLH
494687 fgenesh2_kg.8__503__AT5G43175.1 HLH
494918 fgenesh2_kg.8__734__AT5G48560.1 HLH
495154 fgenesh2_kg.8__970__AT5G50915.1 HLH
495243 fgenesh2_kg.8__1059__AT5G51780.1 HLH
495549 fgenesh2_kg.8__1365__AT5G54680.1 HLH
495811 fgenesh2_kg.8__1627__AT5G57150.1 HLH
496441 fgenesh2_kg.8__2257__AT5G62610.1 HLH
496795 fgenesh2_kg.8__2611__AT5G65640.1 HLH
496889 fgenesh2_kg.8__2705__AT5G67110.1 HLH
496895 fgenesh2_kg.8__2711__AT5G67060.1 HLH
497265 fgenesh2_kg.108__1__AT2G40200.1 HLH
497417 fgenesh2_kg.390__1__AT5G43650.1 HLH
855794 Al_scaffold_0797_1 HLH
856734 Al_scaffold_0007_233 HLH
856896 Al_scaffold_0007_395 HLH
860820 Al_scaffold_0006_329 HLH
864079 Al_scaffold_0006_3588 HLH
864421 Al_scaffold_0006_3930 HLH
869370 Al_scaffold_0004_1533 HLH
869802 Al_scaffold_0004_1965 HLH
870571 Al_scaffold_0004_2734 HLH
872116 Al_scaffold_0003_757 HLH
873720 Al_scaffold_0003_2361 HLH
873923 Al_scaffold_0003_2564 HLH
877212 Al_scaffold_0002_1806 HLH
879201 Al_scaffold_0001_968 HLH
879559 Al_scaffold_0001_1326 HLH
883868 Al_scaffold_0008_132 HLH
885286 Al_scaffold_0008_1550 HLH
885448 Al_scaffold_0008_1712 HLH
885879 Al_scaffold_0008_2143 HLH
888270 scaffold_101064.1 HLH
890840 scaffold_103634.1 HLH
891198 scaffold_103992.1 HLH
892725 scaffold_105519.1 HLH
893615 scaffold_200689.1 HLH
894298 scaffold_201372.1 HLH
896721 scaffold_300691.1 HLH
898955 scaffold_302925.1 HLH
902147 scaffold_401648.1 HLH
903419 scaffold_402920.1 HLH
903576 scaffold_403077.1 HLH
904152 scaffold_403653.1 HLH
904169 scaffold_403670.1 HLH
907404 scaffold_503108.1 HLH
907776 scaffold_503480.1 HLH
907786 scaffold_503490.1 HLH
908762 scaffold_600819.1 HLH
912247 scaffold_604304.1 HLH
913634 scaffold_701376.1 HLH
915109 scaffold_702851.1 HLH
916432 scaffold_704174.1 HLH
916752 scaffold_800152.1 HLH
920517 scaffold_30700001.1 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