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

GSBRNA2T00143425001

Common Name

GSBRNA2T00143425001

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

NF-YA

Protein Properties

Length: 237aa MW: 26098.9 Da PI: 7.2142

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00143425001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	94.9	9.6e-30	147	202	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++Il+RR++Rak+e e+k+ +rkpylheSRhkhA++R R+sgGrF GSBRNA2T00143425001 147 QEPVYVNAKQYEGILRRRKARAKAELERKV--INRKPYLHESRHKHAMKRVRASGGRF 202 69*************************9..89*********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.4E-31	145	205	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	34	146	205	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	6.2E-26	148	202	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	7.1E-23	149	171	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	151	171	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	7.1E-23	179	202	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0016602	Cellular Component	CCAAT-binding factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MQSKSGGRGN EEEVNQQQPM MMYPDPWWKN NSFGGVLPQE RPSASESNDV HSPSEDDGGP 60 CKDSQAATSP PPPGFLEGKD QTASMDDEQV VQPPELVGHY IACVPNPYQD AYYGGMMGAY 120 GHHQPLGFRP YPGMARERTA LPLDTTQEPV YVNAKQYEGI LRRRKARAKA ELERKVINRK 180 PYLHESRHKH AMKRVRASGG RFAKKSEAEA AEDAAAARRE RSSATNSSGS EQPVDS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	9e-16	146	202	1	58	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	186	195	RHKHAMKRVR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:9662544}.

Functional Description ? help Back to Top
Source	Description
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00143425001

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	AK317299	1e-124	AK317299.1 Arabidopsis thaliana AT5G12840 mRNA, complete cds, clone: RAFL21-66-A21.
GenBank	BT025801	1e-124	BT025801.1 Arabidopsis thaliana At5g12840 mRNA, complete cds.
GenBank	Y13720	1e-124	Y13720.1 Arabidopsis thaliana mRNA for Hap2a transcription factor.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009125864.1	1e-151	PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X1
Swissprot	Q9LXV5	1e-108	NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBL	A0A3P6AIT6	1e-173	A0A3P6AIT6_BRACM; Uncharacterized protein
STRING	Bra023378.1-P	1e-150	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5946	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12840.4	2e-75	nuclear factor Y, subunit A1

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] Siriwardana CL, et al. NUCLEAR FACTOR Y, Subunit A (NF-YA) Proteins Positively Regulate Flowering and Act Through FLOWERING LOCUS T. PLoS Genet., 2016. 12(12): p. e1006496 [PMID:27977687] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]