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

RrC17326_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 307aa MW: 34467.9 Da PI: 7.6015

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC17326_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	193.4	7.6e-60	105	243	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskke 99 r+ +++CqdCGnqakkdC h+RCRtCCksrgf+C+thvkstWvpaakrrer +qla++++++++s+++++s+ kr + +++ RrC17326_p1 105 RQASMNCQDCGNQAKKDCPHMRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHHSSSSRETQNSNAKR------------LREENG----F 186 67889*************************************************9977665443333333332............221222....2 PP DUF702 100 letsslPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 ++lP+evss+ vfrcvrvss+++ +++e+aYqtav+igGh+fkGiLydqG+++ RrC17326_p1 187 EVSQNLPPEVSSPVVFRCVRVSSIEEdeDDQEYAYQTAVNIGGHIFKGILYDQGPDQ 243 23456***************98535567*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	3.3E-61	108	242	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	7.7E-28	110	152	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	3.5E-25	192	241	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 307 aa Download sequence Send to blast
MAGTFYLGGR DNNKQDHHQV DKSNYLYLYK DEIYNTNKGF EIWPPRYFQE QQQQHVTAPA 60 NFYSFGMVSG GSSSNNNNNN NNNRSRSLHF NVVSDHEPGG FTVTRQASMN CQDCGNQAKK 120 DCPHMRCRTC CKSRGFHCQT HVKSTWVPAA KRRERLAQLA SLQHHSSSSR ETQNSNAKRL 180 REENGFEVSQ NLPPEVSSPV VFRCVRVSSI EEDEDDQEYA YQTAVNIGGH IFKGILYDQG 240 PDQDHHHQLN LLAPTATTTK AEETAAKTAV TVAGNNNTGS ILDPSVLYPV QLNSYISGTP 300 FFTPTRS

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}.

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	AC189586	1e-165	AC189586.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH012I05, complete sequence.
GenBank	GU205267	1e-165	GU205267.1 Brassica rapa subsp. pekinensis short internode related sequence 5 (SRS5) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009104702.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 5-like
Swissprot	Q9LQZ5	1e-165	SRS5_ARATH; Protein SHI RELATED SEQUENCE 5
TrEMBL	A0A397YY32	0.0	A0A397YY32_BRACM; Uncharacterized protein
TrEMBL	M4CHR6	0.0	M4CHR6_BRARP; Uncharacterized protein
STRING	Bra003749.1-P	0.0	(Brassica rapa)

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-137	SHI-related sequence 5

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]