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

Gorai.003G011800.1

Common Name

B456_003G011800

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 305aa MW: 33159.5 Da PI: 6.7584

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.003G011800.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	194.6	3.3e-60	93	227	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrelkskkqsalsstkls 92 ++sCqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpa++rrerqqq++++ s +++++ ++++skr+r Gorai.003G011800.1 93 SGISCQDCGNQAKKDCPHMRCRTCCKSRGFDCQTHVKSTWVPASRRRERQQQQQQLVSPQQHQQiiRAEQSKRHR---------------- 167 6789********************************************9999987766554422333333333................ PP DUF702 93 saeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 e+++ le ++P+e+sseavfrcvrvs v+d+++++aYqtav+igGhvfkGiLy qG+e+ Gorai.003G011800.1 168 --ENPTGLELGNFPAELSSEAVFRCVRVSNVEDADDQYAYQTAVNIGGHVFKGILYSQGPET 227 ..3456788899**********************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	8.3E-61	94	226	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	8.8E-28	96	138	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	6.9E-27	178	225	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MAGFFLRGQD QQDNNSPPTD QTENWFWCRN EDIPYKGFEL WQQQQQQEQQ QQQHIYMSGL 60 GVGGPSRGSS NFMMMTSGGG NDGGGGGGGG NTSGISCQDC GNQAKKDCPH MRCRTCCKSR 120 GFDCQTHVKS TWVPASRRRE RQQQQQQLVS PQQHQQIIRA EQSKRHRENP TGLELGNFPA 180 ELSSEAVFRC VRVSNVEDAD DQYAYQTAVN IGGHVFKGIL YSQGPETNYD MAGAATTTTT 240 TAGGVAATAA TTASGGASPS STTPFIDPSS LYPTLNTNFM AGIMVLKYSG WNYETLINKT 300 ANGY*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In germinating seeds, first detected at about 48 h after imbibition. In young seedlings grown in continuous light, present in the root/shoot transition zone, in the apex, and in the apical region of the cotyledons. Later observed in lateral root primordia and in emerging lateral roots, particularly in the root tips, as well as in the shoot apex and in the new leaves, especially in the apical and lateral hydathodes. In adult plants, accumulates in lateral root tips, lateral root primordia, and axillary shoot primordia. In flowers, expressed in the style and stigmatic surface of the pistil and in the receptacle (base) of the flower throughout the development of the pistil until anthesis and later in the silique. Fades out after fertilization. {ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.
Uniprot	TISSUE SPECIFICITY: Expressed in young organs such as shoot apices and root tips. Present in roots, stems, flowers, leaves, hydathodes and siliques. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influences vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Suppressor of the gibberellin (GA) signal transduction. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX615550	0.0	JX615550.1 Gossypium hirsutum clone NBRI_GE59584 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012469374.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 1
Swissprot	Q9XGX0	3e-71	SHI_ARATH; Protein SHORT INTERNODES
TrEMBL	A0A0D2NUS0	0.0	A0A0D2NUS0_GOSRA; Uncharacterized protein
STRING	Gorai.003G011800.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM24302	3	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66350.1	7e-55	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Gorai.003G011800.1

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Islam MA, et al. Overexpression of the AtSHI gene in poinsettia, Euphorbia pulcherrima, results in compact plants. PLoS ONE, 2013. 8(1): p. e53377 [PMID:23308204] Pfannebecker KC,Lange M,Rupp O,Becker A An Evolutionary Framework for Carpel Developmental Control Genes. Mol. Biol. Evol., 2017. 34(2): p. 330-348 [PMID:28049761] Estornell LH,Landberg K,Cierlik I,Sundberg E SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis. Front Plant Sci, 2018. 9: p. 150 [PMID:29491878]