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

Gh_D05G0197

Organism

Gossypium hirsutum

Taxonomic ID

3635

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: 547aa MW: 60114.9 Da PI: 5.5429

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D05G0197	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	427.3	1.2e-130	171	536	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdg..dpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshl 96 lv+ L++cAe+v+ gd++la+++L+ ++ l + + ++a +f AL++r+++ ++ + + + e+ ++ f+e++P+lkf+h+ Gh_D05G0197 171 LVHMLMTCAECVQRGDFSLATSCLEDMQGLLTRVNtvCGIGKVAGHFIDALSRRIFQ---GIGG----GSINGGSAYENEILYHHFYEACPYLKFAHF 261 689***********************99555441269*************9...3332....22222235666678899********* PP GRAS 97 taNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeL 194 taNqaIlea++g+++vH++Df++++GlQWpaL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g rLa++A++++v+f f+ ++a+rled+++++L Gh_D05G0197 262 TANQAILEAFDGHDCVHVVDFNLMHGLQWPALIQALALRPGGPPLLRLTGIGPPSPDGRDSLREIGLRLAELARSVNVRFAFRGVAASRLEDVKPWML 359 ********************************************************************************************** PP GRAS 195 rvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgr 292 +v+p+E++aVn+++qlhrll ++++ +s++++vL+ ++sl+Pk+++vveqea+hn++ Fl+rf+eal+yys++fdslea + + ++ + + +++r Gh_D05G0197 360 QVNPKESVAVNSIMQLHRLLGSDLNRNSPIETVLSWIRSLNPKIMTVVEQEANHNQPGFLDRFTEALHYYSTMFDSLEAC---TVQPNKALAEIYIQR 454 *************************************************************************998...578888899999* PP GRAS 293 eivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 ei nvv+ceg++r+erhe l+kWr rl+ aGF+p++l+++a+kqa++ll ++ +gy+vee++g+l+lgW++rpL+++SaW+ Gh_D05G0197 455 EIANVVSCEGSARVERHEPLSKWRTRLSGAGFRPLHLGSNAYKQASMLLTLFSAEGYSVEENDGCLTLGWHSRPLIAASAWQ 536 *********************************************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	2.9E-31	39	105	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	9.5E-20	39	111	No hit	No description
PROSITE profile	PS50985	63.588	145	516	IPR005202	Transcription factor GRAS
Pfam	PF03514	4.2E-128	171	536	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated

Sequence ? help Back to Top
Protein Sequence Length: 547 aa Download sequence Send to blast
MVLYDSATLG GSCSGSSSSS SSSKPPPLQQ RQQTQQDIDG LLAGAGYRVR SSELRKVAQR 60 LERLETAMVN SPADLSQLAS DTIHYNPSDL ASWVDSLLSE FTQPPTCPSE FIMDPETNQT 120 VVSDAWTTAE PHMPQVHQNI SYQQQSLNNQ LTVDNQLTVV TAMEEDSGIR LVHMLMTCAE 180 CVQRGDFSLA TSCLEDMQGL LTRVNTVCGI GKVAGHFIDA LSRRIFQGIG GGSINGGSAY 240 ENEILYHHFY EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLMHGLQW PALIQALALR 300 PGGPPLLRLT GIGPPSPDGR DSLREIGLRL AELARSVNVR FAFRGVAASR LEDVKPWMLQ 360 VNPKESVAVN SIMQLHRLLG SDLNRNSPIE TVLSWIRSLN PKIMTVVEQE ANHNQPGFLD 420 RFTEALHYYS TMFDSLEACT VQPNKALAEI YIQREIANVV SCEGSARVER HEPLSKWRTR 480 LSGAGFRPLH LGSNAYKQAS MLLTLFSAEG YSVEENDGCL TLGWHSRPLI AASAWQAVSD 540 GTADFPA

Sequence ? help Back to Top

Protein Sequence Length: 547 aa Download sequence Send to blast

MVLYDSATLG GSCSGSSSSS SSSKPPPLQQ RQQTQQDIDG LLAGAGYRVR SSELRKVAQR  60
LERLETAMVN SPADLSQLAS DTIHYNPSDL ASWVDSLLSE FTQPPTCPSE FIMDPETNQT  120
VVSDAWTTAE PHMPQVHQNI SYQQQSLNNQ LTVDNQLTVV TAMEEDSGIR LVHMLMTCAE  180
CVQRGDFSLA TSCLEDMQGL LTRVNTVCGI GKVAGHFIDA LSRRIFQGIG GGSINGGSAY  240
ENEILYHHFY EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLMHGLQW PALIQALALR  300
PGGPPLLRLT GIGPPSPDGR DSLREIGLRL AELARSVNVR FAFRGVAASR LEDVKPWMLQ  360
VNPKESVAVN SIMQLHRLLG SDLNRNSPIE TVLSWIRSLN PKIMTVVEQE ANHNQPGFLD  420
RFTEALHYYS TMFDSLEACT VQPNKALAEI YIQREIANVV SCEGSARVER HEPLSKWRTR  480
LSGAGFRPLH LGSNAYKQAS MLLTLFSAEG YSVEENDGCL TLGWHSRPLI AASAWQAVSD  540
GTADFPA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	5e-60	164	535	12	378	Protein SCARECROW
5b3h_A	5e-60	164	535	11	377	Protein SCARECROW
5b3h_D	5e-60	164	535	11	377	Protein SCARECROW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.2820	0.0	boll\| ovule\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitously expressed. Expressed in rosette leaves, roots, stems and inflorescences of greenhouse grown. {ECO:0000269\|PubMed:11877383, ECO:0000269\|PubMed:9237632, ECO:0000269\|PubMed:9490740}.

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	GQ290636	0.0	GQ290636.1 Gossypium hirsutum cultivar Xinluzao-13 GAI/RGA-like 3-a gene, complete cds.
GenBank	HM034760	0.0	HM034760.1 Gossypium hirsutum cultivar Xinluzao-13 GAI3a mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001313921.1	0.0	DELLA protein SLR1-like
Swissprot	Q9LQT8	1e-167	GAI_ARATH; DELLA protein GAI
TrEMBL	C9DA14	0.0	C9DA14_GOSHI; GAI/RGA-like 3-a
STRING	Gorai.009G021700.1	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-150	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]