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

Rsa1.0_01417.1_g00003.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 334aa MW: 37085.6 Da PI: 7.5447

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01417.1_g00003.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	222.1	1.1e-68	107	272	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrel......... 78 r+ +++CqdCGnqakkdC h+RCRtCCksrgf+C+thvkstWvpaakrrer +qla++++++++s++++++kr re Rsa1.0_01417.1_g00003.1 107 RQASMNCQDCGNQAKKDCPHMRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHRSSSSRETQNAKRLREAngggdnddk 192 67889******************************************************9999988888888888888888876 PP DUF702 79 .kskkqsalsstklssaeskkeletss.lPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 + + ++ +t++++a+s++ +e+s+ lP+evss+ vfrcvrvss+++ +++e+aYqtav+igGh+fkGiLydqG++e Rsa1.0_01417.1_g00003.1 193 dRRGSGGSALATRVVNANSNSGFEVSQnLPPEVSSPVVFRCVRVSSIEEdeDDQEYAYQTAVNIGGHIFKGILYDQGPDE 272 6666778889999*****998877***************98535567*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	9.2E-63	110	271	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	8.7E-28	112	154	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	4.0E-25	221	270	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 334 aa Download sequence Send to blast
MAGFFYLGGR DNNKQDHHQV DKSNYLYLYK DEIYNTNKGF EIWPPQYFQE QQQQQQQHVT 60 APANFYSFGM VSSGSSSSNN NNNNNRSRSL HFNVVPDHEP GGFTVTRQAS MNCQDCGNQA 120 KKDCPHMRCR TCCKSRGFHC QTHVKSTWVP AAKRRERLAQ LASLQHRSSS SRETQNAKRL 180 REANGGGDND DKDRRGSGGS ALATRVVNAN SNSGFEVSQN LPPEVSSPVV FRCVRVSSIE 240 EDEDDQEYAY QTAVNIGGHI FKGILYDQGP DEDHQRNLLA PTATTTNAEE TPAKTAVTVA 300 GSNNTGSILD PSALYPVQLN SYISGTPFFT PTRS

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	Rsa1.0_01417.1_g00003.1

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	GU205267	0.0	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_018444433.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 5-like
Swissprot	Q9LQZ5	0.0	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-155	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]