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

GSBRNA2T00120716001

Common Name

GSBRNA2T00120716001, LOC106429015

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: 498aa MW: 55751.3 Da PI: 6.786

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00120716001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	455	4.7e-139	127	497	2	374
GRAS 2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 + L++cA+a+s++dl +a++++++l+ ++s +g+p++Rl ay++e+L a+l++s+s++yk+l+ +++ s++ l+++++++ev+P++ GSBRNA2T00120716001 127 RADLVSCAKAMSENDLMMARSMMEKLRLMVSVSGEPIERLGAYLLEGLVAQLSSSGSSIYKSLNQCPEP--ASTDLLSYMHILYEVCPYF 214 678**********************************************************766665..499************ PP GRAS 92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefn 179 kf+++ aN aI ea+++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++RiTg+++ +s + l+ +g+rLak+A++++vpfefn GSBRNA2T00120716001 215 KFGYMSANGAIAEAMKEENRVHIIDFQIGQGSQWVTLIQAFAARPGGPPRIRITGIDDTTSAyaRGGGLSIVGNRLAKLAKQFNVPFEFN 304 ******************************************************998899999********************* PP GRAS 180 vlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfd 269 v+ +++++++++L v+pgEalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqe+++n++ F+ rf e+++yy a+f+ GSBRNA2T00120716001 305 S-VSVSVSEVKPKNLGVRPGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQESNTNTAAFFPRFKETMDYYDAMFE 393 .7999********************************************************************************* PP GRAS 270 sleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslv 359 s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kWr+r+++aGF+p+pls +++++++llr+++++ yr+ee++g+l+ GSBRNA2T00120716001 394 SIDVTLPRNHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWRSRFGMAGFTPYPLSPLVNSTIRSLLRNYSDK-YRLEERDGALY 482 ************************************************************************55.******* PP GRAS 360 lgWkdrpLvsvSaWr 374 lgW++r Lv+ +aW+ GSBRNA2T00120716001 483 LGWMKRDLVASCAWK 497 ************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	69.85	100	478	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.6E-136	127	497	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: 498 aa Download sequence Send to blast
MYKHPRQEIE AYSLPANSVG KRRYVPVHNS RKRYCTPESS SPDSPAHDVI SNATVLVSHN 60 NSAYEDTSGS CVTDDFNDKI KELETVMMGP DSLDLVLDYN DSFDSTSCQE TNSWRSTLEA 120 VSRRDLRADL VSCAKAMSEN DLMMARSMME KLRLMVSVSG EPIERLGAYL LEGLVAQLSS 180 SGSSIYKSLN QCPEPASTDL LSYMHILYEV CPYFKFGYMS ANGAIAEAMK EENRVHIIDF 240 QIGQGSQWVT LIQAFAARPG GPPRIRITGI DDTTSAYARG GGLSIVGNRL AKLAKQFNVP 300 FEFNSVSVSV SEVKPKNLGV RPGEALAVNF AFVLHHMPDE SVSTENHRDR LLRMVKSLSP 360 KVVTLVEQES NTNTAAFFPR FKETMDYYDA MFESIDVTLP RNHKQRINVE QHCLARDVVN 420 IIACEGADRV ERHELLGKWR SRFGMAGFTP YPLSPLVNST IRSLLRNYSD KYRLEERDGA 480 LYLGWMKRDL VASCAWK*

Sequence ? help Back to Top

Protein Sequence Length: 498 aa Download sequence Send to blast

MYKHPRQEIE AYSLPANSVG KRRYVPVHNS RKRYCTPESS SPDSPAHDVI SNATVLVSHN  60
NSAYEDTSGS CVTDDFNDKI KELETVMMGP DSLDLVLDYN DSFDSTSCQE TNSWRSTLEA  120
VSRRDLRADL VSCAKAMSEN DLMMARSMME KLRLMVSVSG EPIERLGAYL LEGLVAQLSS  180
SGSSIYKSLN QCPEPASTDL LSYMHILYEV CPYFKFGYMS ANGAIAEAMK EENRVHIIDF  240
QIGQGSQWVT LIQAFAARPG GPPRIRITGI DDTTSAYARG GGLSIVGNRL AKLAKQFNVP  300
FEFNSVSVSV SEVKPKNLGV RPGEALAVNF AFVLHHMPDE SVSTENHRDR LLRMVKSLSP  360
KVVTLVEQES NTNTAAFFPR FKETMDYYDA MFESIDVTLP RNHKQRINVE QHCLARDVVN  420
IIACEGADRV ERHELLGKWR SRFGMAGFTP YPLSPLVNST IRSLLRNYSD KYRLEERDGA  480
LYLGWMKRDL VASCAWK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	3e-66	130	497	8	375	GRAS family transcription factor containing protein, expressed
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269\|PubMed:10817761}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00120716001

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	AF153443	0.0	AF153443.1 Arabidopsis thaliana phytochrome A signal transduction 1 protein (PAT1) mRNA, complete cds.
GenBank	AK117483	0.0	AK117483.1 Arabidopsis thaliana At5g48150 mRNA for putative SCARECROW gene regulator, complete cds, clone: RAFL17-10-L05.
GenBank	AK317252	0.0	AK317252.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-43-D17.
GenBank	AK317747	0.0	AK317747.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-04-F15.
GenBank	BT025326	0.0	BT025326.1 Arabidopsis thaliana At5g48150 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013621066.1	0.0	PREDICTED: scarecrow-like transcription factor PAT1
Refseq	XP_013621067.1	0.0	PREDICTED: scarecrow-like transcription factor PAT1
Refseq	XP_013621069.1	0.0	PREDICTED: scarecrow-like transcription factor PAT1
Refseq	XP_013725211.1	0.0	scarecrow-like transcription factor PAT1
Refseq	XP_013725212.1	0.0	scarecrow-like transcription factor PAT1
Refseq	XP_013725213.1	0.0	scarecrow-like transcription factor PAT1
Swissprot	Q9LDL7	0.0	PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBL	A0A0D3AWS7	0.0	A0A0D3AWS7_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6D658	0.0	A0A3P6D658_BRAOL; Uncharacterized protein
STRING	Bo2g149670.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM621	28	141

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G48150.2	0.0	GRAS family protein

Link Out ? help Back to Top
Entrez Gene	106429015

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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] Heyman J, et al. The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence. Nat Plants, 2016. 2(11): p. 16165 [PMID:27797356]