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.011G215400.1

Common Name

B456_011G215400, LOC105776481

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: 281aa MW: 30190.5 Da PI: 6.9461

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.011G215400.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	185	3e-57	87	240	6	153
DUF702 6 asCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa.....aeaaskrkrelkskkqsalsstkl 91 + C+dCGn+akk+C ++RCRtCCksrg+dCathvkstWvpaa+r++r+ + ++ kr+r l+ ++++a++s + Gorai.011G215400.1 87 KVCRDCGNRAKKECGYSRCRTCCKSRGYDCATHVKSTWVPAARRKDRKVLVIGDDDGGGNGGwssgsSSCGGKRQRVLNLTSNAASKSLNF 177 57*******************************************88877765554443355554566678888888899999999999 PP DUF702 92 ssaeskkeletss.lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGle 153 + ++ ++ + +++ lP +v+++avfrc++v++++dge e+aYq++v+i+GhvfkG+Lyd+G++ Gorai.011G215400.1 178 EAGTCHQDSGFKEsLPVRVQAPAVFRCIQVTAISDGESEIAYQATVNISGHVFKGFLYDHGVD 240 99998888876655*********************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01623	2.6E-26	88	130	IPR006510	Zinc finger, lateral root primordium type 1
Pfam	PF05142	7.9E-54	88	240	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01624	5.6E-26	192	239	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 281 aa Download sequence Send to blast
MLGLHNIFLI APPPQENQQQ QAPPPPPPPP QPQPFNQNYN LTDTNLWTLK RSTAQESIPV 60 FQKKDGALNN VEEDDDDESG AAGGCFKVCR DCGNRAKKEC GYSRCRTCCK SRGYDCATHV 120 KSTWVPAARR KDRKVLVIGD DDGGGNGGWS SGSSSCGGKR QRVLNLTSNA ASKSLNFEAG 180 TCHQDSGFKE SLPVRVQAPA VFRCIQVTAI SDGESEIAYQ ATVNISGHVF KGFLYDHGVD 240 VKNEFPCISK VVFESSSSGR DRDSSSPVVD PANTFAASGD *

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269\|PubMed:7647564}.
Uniprot	TISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269\|PubMed:7647564}.

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 influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

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	DQ108557	2e-41	DQ108557.1 Corchorus olitorius SSR marker J159-M13F genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012454601.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 6
Refseq	XP_012454602.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 6
Swissprot	Q94CK9	2e-47	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A0D2VQ14	0.0	A0A0D2VQ14_GOSRA; Uncharacterized protein
STRING	Gorai.011G215400.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11959	23	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	2e-48	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Gorai.011G215400.1
Entrez Gene	105776481

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] 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]