PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Cotton_A_20431_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

GRAS

Protein Properties

Length: 538aa MW: 58836.4 Da PI: 5.5316

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_20431_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	420.8	1.1e-128	161	526	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdg..dpmqRlaayfteALaarlar.svselykalppsetseknsseelaa 80 lv+ L++cAe+v+sgdl+la++l+ ++ l + + ++a +f AL++r+++ ++ + ++ s e+ Cotton_A_20431_BGI-A2_v1.0 161 LVHMLMTCAECVQSGDLSLATSLIGDMQGLLTHVNtvCGIGKVAGHFIDALSRRIFQgMGGGSVN--GGS------AFENEIL 235 689***********************99555551369*************922222222..222......2333445 PP GRAS 81 lklfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetge 163 ++ f+e++P+lkf+h+taNqaIlea++g+++vH++Df++++GlQWpaL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g Cotton_A_20431_BGI-A2_v1.0 236 HHHFYEACPYLKFAHFTANQAILEAFDGHDCVHVVDFNLMHGLQWPALIQALALRPGGPPLLRLTGIGPPSPDGRDSLREIGL 318 567**************************************************************************** PP GRAS 164 rLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqea 246 rLa++A++++v+f f+ ++a+rled+++++L+v+p+Ea+aVn+++qlhrll ++++ +s++d+vL+ +++l+Pk+++vveqea Cotton_A_20431_BGI-A2_v1.0 319 RLAELARSVNVRFAFRGVAASRLEDVKPWMLQVNPKEAVAVNSIMQLHRLLGSEQTRNSPIDTVLSWIRGLNPKIMTVVEQEA 401 ******************************************************************************* PP GRAS 247 dhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvpl 329 +hn++ Fl+rf+eal+yys++fdslea + ++ + + +++rei nvv+ceg++r+erhe l+kWr+rl+ aGF++++l Cotton_A_20431_BGI-A2_v1.0 402 NHNQPGFLDRFTEALYYYSTMFDSLEAC---RVQPEKALAEIYIQREIGNVVSCEGSARVERHEPLAKWRRRLSGAGFRALHL 481 *********************999...456666777788************************************ PP GRAS 330 sekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 +++a kqa++ll ++ +gy+vee++g+l lgW++rpL+++SaW+ Cotton_A_20431_BGI-A2_v1.0 482 GSNAFKQASMLLTLFSAEGYSVEENEGCLSLGWHSRPLIAASAWQ 526 ******************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	1.0E-28	33	99	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	1.0E-17	33	105	No hit	No description
PROSITE profile	PS50985	63.065	135	506	IPR005202	Transcription factor GRAS
Pfam	PF03514	4.0E-126	161	526	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 538 aa Download sequence Send to blast
MLRYDSTSSS AGSSSGSLSS SSSSSKPPQQ DIDGLLAGAG YKVRSSELRQ VAQRLERLET 60 AMGNSPADFS QLASDAILYN PSDLVCWVDS LLTEFAEPPP TCSSDFIVDP VNNQTVVNSA 120 WTTAEPHTPQ VHQNITYDEQ QSLDNQLTVV TAMEEDSGIR LVHMLMTCAE CVQSGDLSLA 180 TSLIGDMQGL LTHVNTVCGI GKVAGHFIDA LSRRIFQGMG GGSVNGGSAF ENEILHHHFY 240 EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLMHGLQW PALIQALALR PGGPPLLRLT 300 GIGPPSPDGR DSLREIGLRL AELARSVNVR FAFRGVAASR LEDVKPWMLQ VNPKEAVAVN 360 SIMQLHRLLG SEQTRNSPID TVLSWIRGLN PKIMTVVEQE ANHNQPGFLD RFTEALYYYS 420 TMFDSLEACR VQPEKALAEI YIQREIGNVV SCEGSARVER HEPLAKWRRR LSGAGFRALH 480 LGSNAFKQAS MLLTLFSAEG YSVEENEGCL SLGWHSRPLI AASAWQAVPA WDNHMSSS

Sequence ? help Back to Top

Protein Sequence Length: 538 aa Download sequence Send to blast

MLRYDSTSSS AGSSSGSLSS SSSSSKPPQQ DIDGLLAGAG YKVRSSELRQ VAQRLERLET  60
AMGNSPADFS QLASDAILYN PSDLVCWVDS LLTEFAEPPP TCSSDFIVDP VNNQTVVNSA  120
WTTAEPHTPQ VHQNITYDEQ QSLDNQLTVV TAMEEDSGIR LVHMLMTCAE CVQSGDLSLA  180
TSLIGDMQGL LTHVNTVCGI GKVAGHFIDA LSRRIFQGMG GGSVNGGSAF ENEILHHHFY  240
EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLMHGLQW PALIQALALR PGGPPLLRLT  300
GIGPPSPDGR DSLREIGLRL AELARSVNVR FAFRGVAASR LEDVKPWMLQ VNPKEAVAVN  360
SIMQLHRLLG SEQTRNSPID TVLSWIRGLN PKIMTVVEQE ANHNQPGFLD RFTEALYYYS  420
TMFDSLEACR VQPEKALAEI YIQREIGNVV SCEGSARVER HEPLAKWRRR LSGAGFRALH  480
LGSNAFKQAS MLLTLFSAEG YSVEENEGCL SLGWHSRPLI AASAWQAVPA WDNHMSSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	2e-59	154	525	12	378	Protein SCARECROW
5b3h_A	2e-59	154	525	11	377	Protein SCARECROW
5b3h_D	2e-59	154	525	11	377	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Transcription coactivator of the zinc finger transcription factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis and signaling (PubMed:25035403). No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Positively regulates XERICO expression. In contrast to RGA, it is less sensitive to GA. Its activity is probably regulated by other phytohormones such as auxin and ethylene. {ECO:0000269\|PubMed:11487693, ECO:0000269\|PubMed:11606551, ECO:0000269\|PubMed:11606552, ECO:0000269\|PubMed:14973286, ECO:0000269\|PubMed:15128937, ECO:0000269\|PubMed:16034591, ECO:0000269\|PubMed:17933900, ECO:0000269\|PubMed:25035403, ECO:0000269\|PubMed:9389651}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	GQ290639	0.0	GQ290639.1 Gossypium hirsutum cultivar Xinluzao-13 GAI/RGA-like 4-b gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017643084.1	0.0	PREDICTED: DELLA protein DWARF8-like
Swissprot	Q9LQT8	1e-165	GAI_ARATH; DELLA protein GAI
TrEMBL	C5IYG9	0.0	C5IYG9_GOSHI; GAI/RGA-like 4-b
STRING	Gorai.010G067000.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16045	10	15

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14920.1	1e-148	GRAS family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Gallego-Giraldo C, et al. Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis. Plant J., 2014. 79(6): p. 1020-1032 [PMID:24961590] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Marín-de la Rosa N, et al. Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. PLoS Genet., 2015. 11(7): p. e1005337 [PMID:26134422] Shi H,Wei Y,Wang Q,Reiter RJ,He C Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis. J. Pineal Res., 2016. 60(3): p. 373-9 [PMID:26887824] Lee SA, et al. Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue. Mol Plant, 2016. 9(6): p. 870-84 [PMID:26970019] Qu J,Kang SG,Hah C,Jang JC Molecular and cellular characterization of GA-Stimulated Transcripts GASA4 and GASA6 in Arabidopsis thaliana. Plant Sci., 2016. 246: p. 1-10 [PMID:26993231] Shahnejat-Bushehri S,Nobmann B,Devi Allu A,Balazadeh S JUB1 suppresses Pseudomonas syringae-induced defense responses through accumulation of DELLA proteins. Plant Signal Behav, 2016. 11(6): p. e1181245 [PMID:27159137] Shahnejat-Bushehri S,Tarkowska D,Sakuraba Y,Balazadeh S Arabidopsis NAC transcription factor JUB1 regulates GA/BR metabolism and signalling. Nat Plants, 2016. 2: p. 16013 [PMID:27249348] Wang H, et al. The DELLA-CONSTANS Transcription Factor Cascade Integrates Gibberellic Acid and Photoperiod Signaling to Regulate Flowering. Plant Physiol., 2016. 172(1): p. 479-88 [PMID:27406167] Li W,Wang H,Yu D Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions. Mol Plant, 2016. 9(11): p. 1492-1503 [PMID:27592586] Liu B,De Storme N,Geelen D Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis. Plant Physiol., 2017. 173(1): p. 338-353 [PMID:27621423] Matsuoka K, et al. Differential Cellular Control by Cotyledon-Derived Phytohormones Involved in Graft Reunion of Arabidopsis Hypocotyls. Plant Cell Physiol., 2016. 57(12): p. 2620-2631 [PMID:27986917] Zentella R, et al. The Arabidopsis O-fucosyltransferase SPINDLY activates nuclear growth repressor DELLA. Nat. Chem. Biol., 2017. 13(5): p. 479-485 [PMID:28244988] Zhang Y, et al. GA-DELLA pathway is involved in regulation of nitrogen deficiency-induced anthocyanin accumulation. Plant Cell Rep., 2017. 36(4): p. 557-569 [PMID:28275852] Zhang L,Chen L,Yu D Transcription Factor WRKY75 Interacts with DELLA Proteins to Affect Flowering. Plant Physiol., 2018. 176(1): p. 790-803 [PMID:29133369] Nelson SK,Ariizumi T,Steber CM Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant. Front Plant Sci, 2017. 8: p. 2158 [PMID:29312402] Liu B,De Storme N,Geelen D Cold-Induced Male Meiotic Restitution in Arabidopsis thaliana Is Not Mediated by GA-DELLA Signaling. Front Plant Sci, 2018. 9: p. 91 [PMID:29459879] Zhang Y, et al. DELLA proteins negatively regulate dark-induced senescence and chlorophyll degradation in Arabidopsis through interaction with the transcription factor WRKY6. Plant Cell Rep., 2018. 37(7): p. 981-992 [PMID:29574486] Felipo-Benavent A, et al. Regulation of xylem fiber differentiation by gibberellins through DELLA-KNAT1 interaction. Development, 2019. [PMID:30389856] Wright DA, et al. Recovery of YAC-end sequences through complementation of an Escherichia coli pyrF mutation. Nucleic Acids Res., 1997. 25(13): p. 2679-80 [PMID:9185581]