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

GSBRNA2T00092749001

Common Name

GSBRNA2T00092749001, LOC106357301

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: 346aa MW: 38329.9 Da PI: 6.7887

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00092749001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	225.2	1.3e-69	114	281	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrel..........k 79 r+g+++CqdCGnqakkdC h+RCRtCCksrgf+C+thvkstWvpaakrrer +qla++++++a+s+ +a++kr re + GSBRNA2T00092749001 114 RQGGMNCQDCGNQAKKDCPHMRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHHSASSRetPNANAKRLREVdggdndddkdH 203 7899*****************************************************9999988663344444444456666655444 PP DUF702 80 skkqsalsstklssaeskkelet.sslPeevsseavfrcvrvssvdd..geeelaYqtavsigGhvfkGiLydqGlee 154 + ++ +t++++++s++ le+ ++lP+evss+avfrcvrvss+++ +++e+aYqtav+igGhvfkGiLydqG+++ GSBRNA2T00092749001 204 NGGGGSSLATRVVNTNSNSGLEAiQKLPPEVSSPAVFRCVRVSSIEEdeDDQEYAYQTAVNIGGHVFKGILYDQGPDQ 281 55667788888899888888775167***************98535567*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.5E-64	117	280	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	9.1E-28	119	161	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.8E-26	230	279	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 346 aa Download sequence Send to blast
MAGFFYLGGR DNNNSKQDHH QVDKDHHHHQ DKSNYLYLYK DEIYNTNKGF EIWPPQYFQQ 60 QQEQQQHVTP PSNFYSFGMV PSGSSSGNNN NNRSRGLYFN VVSDHEPGGF TVTRQGGMNC 120 QDCGNQAKKD CPHMRCRTCC KSRGFHCQTH VKSTWVPAAK RRERLAQLAS LQHHSASSRE 180 TPNANAKRLR EVDGGDNDDD KDHNGGGGSS LATRVVNTNS NSGLEAIQKL PPEVSSPAVF 240 RCVRVSSIEE DEDDQEYAYQ TAVNIGGHVF KGILYDQGPD QDHHHQFNLL ASTATTTNAE 300 EIAAKTAVTI AGNNNSGLIL DPSSLYPTQL NSFIAGTPFF TPPRD*

Sequence ? help Back to Top

Protein Sequence Length: 346 aa Download sequence Send to blast

MAGFFYLGGR DNNNSKQDHH QVDKDHHHHQ DKSNYLYLYK DEIYNTNKGF EIWPPQYFQQ  60
QQEQQQHVTP PSNFYSFGMV PSGSSSGNNN NNRSRGLYFN VVSDHEPGGF TVTRQGGMNC  120
QDCGNQAKKD CPHMRCRTCC KSRGFHCQTH VKSTWVPAAK RRERLAQLAS LQHHSASSRE  180
TPNANAKRLR EVDGGDNDDD KDHNGGGGSS LATRVVNTNS NSGLEAIQKL PPEVSSPAVF  240
RCVRVSSIEE DEDDQEYAYQ TAVNIGGHVF KGILYDQGPD QDHHHQFNLL ASTATTTNAE  300
EIAAKTAVTI AGNNNSGLIL DPSSLYPTQL NSFIAGTPFF TPPRD*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.29201	1e-147	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	GSBRNA2T00092749001

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	A0A078JW90	0.0	A0A078JW90_BRANA; BnaAnng31570D protein
TrEMBL	A0A397YRU9	0.0	A0A397YRU9_BRACM; Uncharacterized protein
TrEMBL	D2KC76	0.0	D2KC76_BRARP; Short internode related sequence 5
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-157	SHI-related sequence 5

Link Out ? help Back to Top
Entrez Gene	106357301

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]