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

GSBRNA2T00108990001

Common Name

GSBRNA2T00108990001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 315aa MW: 34792.5 Da PI: 9.2707

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00108990001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	169.2	2.2e-52	163	304	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklss 93 ++ C+dCGn+akk+C +eRCRtCCksrg++CathvkstWvp+++rr+ + +++ss+++++ + ++s+++++ ++ +++ GSBRNA2T00108990001 163 EEKVCKDCGNRAKKECLFERCRTCCKSRGYNCATHVKSTWVPSSHRRSVSR-SSSSSSDRNKKLKLDSSDKPKS--------VEI--VPT 241 6789*****************************************9533.2233333333333444444433........333..344 PP DUF702 94 aeskkeletss.lPeevsseavfrcvrvssvdd.geeelaYqtavsigGhvfkGiLydqGlee 154 ++s++e+++++ lP +++++avf+++rv++v++ +++e++Yq++v+i+GhvfkG+L+++G+++ GSBRNA2T00108990001 242 TTSRQETSFKEgLPGKIEAPAVFKRTRVTAVSNnEQAEIGYQATVTISGHVFKGFLHYYGVDH 304 444444444444***************9868899*********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.6E-47	165	303	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.3E-26	166	208	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.1E-28	254	302	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 315 aa Download sequence Send to blast
MKRILSRNKP SRYIDCLFVC ILIVVGGDDS YLGTMCFHDN YLIPPEPYSF SLRLCPITAW 60 DFGLVHLQGS TSLLESLLGY KLNAIQLDLK HHQPSPSSTP FSAVASTVPD HSSAAVISTP 120 DYMLGLRNTV FLNQPPSQIT QPSLVNFTGA DVNNKSSRNS NVEEKVCKDC GNRAKKECLF 180 ERCRTCCKSR GYNCATHVKS TWVPSSHRRS VSRSSSSSSD RNKKLKLDSS DKPKSVEIVP 240 TTTSRQETSF KEGLPGKIEA PAVFKRTRVT AVSNNEQAEI GYQATVTISG HVFKGFLHYY 300 GVDHNKSFPC LSNK*

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) (By similarity). {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00108990001

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	AF446889	1e-67	AF446889.1 Arabidopsis thaliana AT3g54430/T12E18_120 mRNA, complete cds.
GenBank	AY052675	1e-67	AY052675.1 Arabidopsis thaliana AT3g54430/T12E18_120 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009116129.2	1e-154	PREDICTED: protein SHI RELATED SEQUENCE 6-like
Swissprot	Q9M2U4	1e-92	SRS6_ARATH; Protein SHI RELATED SEQUENCE 6
TrEMBL	A0A0D3DT10	0.0	A0A0D3DT10_BRAOL; Uncharacterized protein
STRING	Bo8g083680.1	0.0	(Brassica oleracea)

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
AT3G54430.1	3e-87	SHI-related sequence 6

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]