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

GSBRNA2T00087578001

Common Name

GSBRNA2T00087578001

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: 345aa MW: 38249.9 Da PI: 7.2892

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00087578001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	224.3	2.4e-69	115	280	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrel.........ksk 81 g+++CqdCGnqakkdC h RCRtCCksrgf+C+thvkstWvpaakrrer +qla++++++a+s+ ++a++kr re +s GSBRNA2T00087578001 115 GGGMNCQDCGNQAKKDCPHLRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHHSATSRetQNAKAKRLREAnggdnddkdRSG 204 5789****************************************************99999884433334444444777777766666 PP DUF702 82 kqsalsstklssaeskkelet.sslPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 + ++ +t+l++a+s++ le+ ++lP+evss+avfrcvrvss+++ +++e+aYqtav+igGhvfkGiLydqG+++ GSBRNA2T00087578001 205 GSGSALATRLVNANSNSGLEAiQKLPPEVSSPAVFRCVRVSSIEEdeDDQEYAYQTAVNIGGHVFKGILYDQGPDQ 280 777888899999999988875166***************98535567*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.7E-64	117	279	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.7E-27	119	161	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.8E-26	229	278	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: 345 aa Download sequence Send to blast
MAGFFYLGGR DNNNSKQDHH QVDKDHHHHQ DKSNYLYLYK DEIYNTNKGF EIWPPQYFQQ 60 QQEQQQHHVT ASTNLYSFGM VPSSSNNNNN NRSRSLYFNV VSDHEPGGFS VTRQGGGMNC 120 QDCGNQAKKD CPHLRCRTCC KSRGFHCQTH VKSTWVPAAK RRERLAQLAS LQHHSATSRE 180 TQNAKAKRLR EANGGDNDDK DRSGGSGSAL ATRLVNANSN SGLEAIQKLP PEVSSPAVFR 240 CVRVSSIEED EDDQEYAYQT AVNIGGHVFK GILYDQGPDQ DHHHQLNLLA STATTTNAEE 300 IAAKTAVTIA GNNNSGLILD PSSLYPTQLN SFIAGTPFFT PPRD*

Sequence ? help Back to Top

Protein Sequence Length: 345 aa Download sequence Send to blast

MAGFFYLGGR DNNNSKQDHH QVDKDHHHHQ DKSNYLYLYK DEIYNTNKGF EIWPPQYFQQ  60
QQEQQQHHVT ASTNLYSFGM VPSSSNNNNN NRSRSLYFNV VSDHEPGGFS VTRQGGGMNC  120
QDCGNQAKKD CPHLRCRTCC KSRGFHCQTH VKSTWVPAAK RRERLAQLAS LQHHSATSRE  180
TQNAKAKRLR EANGGDNDDK DRSGGSGSAL ATRLVNANSN SGLEAIQKLP PEVSSPAVFR  240
CVRVSSIEED EDDQEYAYQT AVNIGGHVFK GILYDQGPDQ DHHHQLNLLA STATTTNAEE  300
IAAKTAVTIA GNNNSGLILD PSSLYPTQLN SFIAGTPFFT PPRD*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.29201	0.0	bud

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	GSBRNA2T00087578001

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_013652439.1	0.0	protein SHI RELATED SEQUENCE 5
Swissprot	Q9LQZ5	0.0	SRS5_ARATH; Protein SHI RELATED SEQUENCE 5
TrEMBL	A0A078IBM8	0.0	A0A078IBM8_BRANA; BnaAnng09150D protein
STRING	Bra015837.1-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-165	SHI-related sequence 5

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]