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

GSBRNA2T00129563001

Common Name

GSBRNA2T00129563001

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: 312aa MW: 34360.9 Da PI: 9.8607

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00129563001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	167.1	1e-51	160	301	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklss 93 ++ C+dCGn+akk+C +eRCRtCCksrg++CathvkstWvp+++ r+ + +++ss+++++ + ++s+++++ +++ GSBRNA2T00129563001 160 EEKVCKDCGNRAKKECLFERCRTCCKSRGYNCATHVKSTWVPSSHHRSVSR-SSSSSSDRNKKLKLDSSDKPKSV----------LIVPT 238 6789**************************************9998433.33333333333444444444433..........33333 PP DUF702 94 aeskkele.tsslPeevsseavfrcvrvssvdd.geeelaYqtavsigGhvfkGiLydqGlee 154 ++s++e++ +++lP +++++avf+++rv++v++ +++e++Yq++v+i+GhvfkG+L+++G+++ GSBRNA2T00129563001 239 TTSRQETSfKERLPGKIEAPAVFKRTRVTAVSNnEQAEIGYQATVTISGHVFKGFLHYYGVDH 301 344444440345***************9868899*********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	6.2E-47	162	300	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	4.5E-26	163	204	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.6E-28	250	299	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 312 aa Download sequence Send to blast
MCFQDNYLIP PEPYSLSLRD FGLVHLQGST SLLESLLGYK LNAIQLDLKL PLLRVYNLAP 60 TSTRFIITST VANPPSLFSW PQHHQPPPSS TPFSAVASTV PDHSSTVSAA VISTPDYMLG 120 LRNTLFLNQP PSQITQPSPS PVNFTAADVN NKSSRNSNVE EKVCKDCGNR AKKECLFERC 180 RTCCKSRGYN CATHVKSTWV PSSHHRSVSR SSSSSSDRNK KLKLDSSDKP KSVLIVPTTT 240 SRQETSFKER LPGKIEAPAV FKRTRVTAVS NNEQAEIGYQ ATVTISGHVF KGFLHYYGVD 300 HNKSFPSLSN K*

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	GSBRNA2T00129563001

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	0.0	PREDICTED: protein SHI RELATED SEQUENCE 6-like
Swissprot	Q9M2U4	1e-92	SRS6_ARATH; Protein SHI RELATED SEQUENCE 6
TrEMBL	M4CS80	0.0	M4CS80_BRARP; Uncharacterized protein
STRING	Bra007072.1-P	0.0	(Brassica rapa)

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	2e-76	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]