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

Ciclev10015674m

Common Name

CICLE_v10015674mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

SRS

Protein Properties

Length: 370aa MW: 38733.4 Da PI: 8.3026

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10015674m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	210.3	4.8e-65	138	300	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa....aeaaskrkrelkskkqsalsstklss 93 +++CqdCGnqakkdC+h+RCRtCCksrgf+C+thvkstWvpa++rrerq ++aaa++ +a +++ k++ + +++++s+t++s+ Ciclev10015674m 138 SATTCQDCGNQAKKDCSHRRCRTCCKSRGFECSTHVKSTWVPASRRRERQLMAAAAATVGPGAAgssgSTSGIKKP---RLISSQTTSHTSTSN 228 5679*******************************************999888777665555332333334444...445777788899999 PP DUF702 94 aeskkeletss..........lPeevsseavfrcvrvssvdd.geeelaYqtavsigGhvfkGiLydqGlee 154 ++++++++t+s lP +++++avf+cvrv++v+d ge+e+aYq++v+igGhvfkG+LydqG+++ Ciclev10015674m 229 TTPPRSFDTTSshqdasfkesLPGQIRAPAVFKCVRVTAVEDnGEDEYAYQAVVKIGGHVFKGFLYDQGVDD 300 99999999998999**********************9989***********************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	9.1E-62	140	299	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.3E-26	141	183	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	9.8E-30	250	298	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0048364	Biological Process	root development
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 370 aa Download sequence Send to blast
MGMFVVAPAS SFNHHHHHLH HHLHNHESSI NVNSSDPMAA QNAAAATALG VGVIPLLAAD 60 QDLLNNFNSR NNNKVSQIQF WQQNQNSHHQ YFKKPAAASS SSTFLEHHNN FIPSGAVTVA 120 AASGGGNNNS NNIAGCSSAT TCQDCGNQAK KDCSHRRCRT CCKSRGFECS THVKSTWVPA 180 SRRRERQLMA AAAATVGPGA AGSSGSTSGI KKPRLISSQT TSHTSTSNTT PPRSFDTTSS 240 HQDASFKESL PGQIRAPAVF KCVRVTAVED NGEDEYAYQA VVKIGGHVFK GFLYDQGVDD 300 HHHQTREGFP NMAELHLGGG ASSSGPGGSG NGGKNAACSS SPNILDPSDV YAASAGGFLG 360 GSTYGNPIN*

Sequence ? help Back to Top

Protein Sequence Length: 370 aa Download sequence Send to blast

MGMFVVAPAS SFNHHHHHLH HHLHNHESSI NVNSSDPMAA QNAAAATALG VGVIPLLAAD  60
QDLLNNFNSR NNNKVSQIQF WQQNQNSHHQ YFKKPAAASS SSTFLEHHNN FIPSGAVTVA  120
AASGGGNNNS NNIAGCSSAT TCQDCGNQAK KDCSHRRCRT CCKSRGFECS THVKSTWVPA  180
SRRRERQLMA AAAATVGPGA AGSSGSTSGI KKPRLISSQT TSHTSTSNTT PPRSFDTTSS  240
HQDASFKESL PGQIRAPAVF KCVRVTAVED NGEDEYAYQA VVKIGGHVFK GFLYDQGVDD  300
HHHQTREGFP NMAELHLGGG ASSSGPGGSG NGGKNAACSS SPNILDPSDV YAASAGGFLG  360
GSTYGNPIN*

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006446278.1	0.0	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	7e-78	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A2H5PF14	0.0	A0A2H5PF14_CITUN; Uncharacterized protein
TrEMBL	V4TGL8	0.0	V4TGL8_9ROSI; Uncharacterized protein
STRING	XP_006446278.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5883	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	2e-65	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Ciclev10015674m
Entrez Gene	18050781

Publications ? help Back to Top
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]