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

Carubv10021561m

Common Name

CARUB_v10021561mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

SRS

Protein Properties

Length: 335aa MW: 37103.4 Da PI: 7.1124

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10021561m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	227.5	2.5e-70	104	272	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrel.............kskk 82 r+g+++CqdCGnqakkdC h+RCRtCCksrgf+C+thvkstWvpaakrrer +qla++++++++s++++++kr re + Carubv10021561m 104 RQGGMNCQDCGNQAKKDCPHMRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHHSTSSRETQNTKRLREAsggdnnnnddkdhSGGG 197 7899*******************************************************999995555555555555555555555447788 PP DUF702 83 qsalsstklssaeskkeletss.lPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 sal++t++++++s++ le+s+ lP+ev+s+avfrcvrvss+++ +++e+aYqtav+igGhvfkGiLydqG+++ Carubv10021561m 198 GSALANTRVVNTNSNSGLEVSQhLPPEVNSPAVFRCVRVSSIEEdeDDQEYAYQTAVNIGGHVFKGILYDQGPDQ 272 899*********9998776***************98535567*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	5.4E-64	107	271	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	8.7E-28	109	151	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.4E-26	220	270	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048467	Biological Process	gynoecium development

Sequence ? help Back to Top
Protein Sequence Length: 335 aa Download sequence Send to blast
MAGFFYLGGR DNNSKQDHHQ DKNYLYLYKD EIYNNNKGFE IWPPQYFQQQ EQPQQQQHAS 60 APANFYSFGM VPSGSSSNNN NSRSRSLYFN VVSDHEPGGF TVTRQGGMNC QDCGNQAKKD 120 CPHMRCRTCC KSRGFHCQTH VKSTWVPAAK RRERLAQLAS LQHHSTSSRE TQNTKRLREA 180 SGGDNNNNDD KDHSGGGGSA LANTRVVNTN SNSGLEVSQH LPPEVNSPAV FRCVRVSSIE 240 EDEDDQEYAY QTAVNIGGHV FKGILYDQGP DQDHHHHHLN LLASTATTTN VEETATKTVA 300 GNNSNGLMLD PSSLYPAQLN SFIAGTSFFT PPRS*

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). {ECO:0000269\|PubMed:16740146}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10021561m

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	AY800620	0.0	AY800620.1 Arabidopsis thaliana clone H0000001204 hypothetical protein (AT1G75520) mRNA, complete cds.
GenBank	AY924730	0.0	AY924730.1 Arabidopsis thaliana hypothetical protein (At1g75520) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006301163.1	0.0	protein SHI RELATED SEQUENCE 5
Swissprot	Q9LQZ5	0.0	SRS5_ARATH; Protein SHI RELATED SEQUENCE 5
TrEMBL	R0GEL1	0.0	R0GEL1_9BRAS; Uncharacterized protein
STRING	XP_006301163.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2645	25	72

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75520.1	1e-165	SHI-related sequence 5

Link Out ? help Back to Top
Phytozome	Carubv10021561m
Entrez Gene	17894820

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]