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

GSBRNA2T00124210001

Common Name

GSBRNA2T00124210001

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

GRAS

Protein Properties

Length: 241aa MW: 26475.4 Da PI: 5.9486

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00124210001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	229	2.1e-70	14	231	2	221
GRAS 2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 + +L+ecA+av+++d +++++l+++l++++s +g+p+qRl ay++e+L a la+s+s++ykal++++ + e l++l++++e++P++ GSBRNA2T00124210001 14 IGTLYECAKAVDNHDVAMTDWLISQLQQMVSVSGEPVQRLGAYMLEGLIAWLASSGSSIYKALRCRDPT---GPELLTYLHILYEACPYF 100 5689**************************************************************9...9************* PP GRAS 92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefn 179 kf++ aN aI eav++e+ vHiiDf+isqG+QW++L++aL +Rp+gpp++RiTg+++p+s+ ++ le +gerL k+Ae gvpfef+ GSBRNA2T00124210001 101 KFGYESANGAIAEAVKNERFVHIIDFQISQGGQWVSLIRALGARPGGPPRVRITGIDDPRSSfaRQGGLELVGERLGKLAEMYGVPFEFR 190 *******************************************************999999*********************** PP GRAS 180 vlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsle 221 +a ++++e+e+L v++ EalaVn+ l lh+++desv+ + GSBRNA2T00124210001 191 G-AALCCTEVEIEKLGVRNSEALAVNFPLVLHHMPDESVTNQ 231 .899*******************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	41.377	1	240	IPR005202	Transcription factor GRAS
Pfam	PF03514	7.3E-68	14	231	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated

Sequence ? help Back to Top
Protein Sequence Length: 241 aa Download sequence Send to blast
MHRSMEMISK GDLIGTLYEC AKAVDNHDVA MTDWLISQLQ QMVSVSGEPV QRLGAYMLEG 60 LIAWLASSGS SIYKALRCRD PTGPELLTYL HILYEACPYF KFGYESANGA IAEAVKNERF 120 VHIIDFQISQ GGQWVSLIRA LGARPGGPPR VRITGIDDPR SSFARQGGLE LVGERLGKLA 180 EMYGVPFEFR GAALCCTEVE IEKLGVRNSE ALAVNFPLVL HHMPDESVTN QPLVTSCAWR 240 *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-30	19	216	25	219	Protein SCARECROW
5b3h_A	1e-30	19	216	24	218	Protein SCARECROW
5b3h_D	1e-30	19	216	24	218	Protein SCARECROW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.3669	5e-82	root\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, shoots, leaves, flowers and siliques. {ECO:0000269\|PubMed:10341448, ECO:0000269\|PubMed:18500650}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00124210001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013712041.1	1e-168	LOW QUALITY PROTEIN: scarecrow-like protein 5
Swissprot	Q8H125	1e-154	SCL5_ARATH; Scarecrow-like protein 5
TrEMBL	A0A078F2X6	1e-178	A0A078F2X6_BRANA; BnaC05g26710D protein
STRING	Bo5g079990.1	1e-169	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G50600.1	1e-156	scarecrow-like 5

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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]