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

LOC_Os12g41880.2

Common Name

LOC4352778, NF-Y22, Os12g0613000, OsHAP2B, OsJ_36853, OSNPB_120613000

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

NF-YA

Protein Properties

Length: 218aa MW: 23721.1 Da PI: 9.5575

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os12g41880.2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	104.8	7.7e-33	108	164	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++Il+RRq+Rak+e+ekkl k+rkpylheSRh+hAl+R+Rg gGrF LOC_Os12g41880.2 108 EEPVYVNAKQYNAILRRRQSRAKAESEKKL-VKGRKPYLHESRHQHALKRARGAGGRF 164 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.7E-35	106	167	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	36.332	107	167	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	2.2E-27	109	164	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	2.0E-23	110	132	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	112	132	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	2.0E-23	141	164	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045892	Biological Process	negative 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

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0020039	anatomy	leaf lamina

Sequence ? help Back to Top
Protein Sequence Length: 218 aa Download sequence Send to blast
MTSVVHDVSG NHGADERQKQ QRQGEPEDQQ EASVTSTDSH TMVATPSTDY ATPYAHHDMA 60 HAMGQIAYAN IDPYYGSLYA AYGGQPMMHP PLVGMHPAGL PLPTDAIEEP VYVNAKQYNA 120 ILRRRQSRAK AESEKKLVKG RKPYLHESRH QHALKRARGA GGRFLNSKSD DKEEHSDSSS 180 RDKQDGVAPR DSGQPSTSPS SKGASSAKQN KKSKTSN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	6e-22	107	171	1	65	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.5602	0.0	callus\| leaf\| panicle\| stem

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	Q2QM93

Function -- GeneRIF ? help Back to Top
Drought stress induced expression of OsNF-YA7 but not OsNF-YA4; overexpression of the former but not the latter improved drought stress. Expression of the latter but not the former was highly induced by the stress-related hormone abscisic acid. [PMID: 26706071]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os12g41880.2

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os12g41880

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB288028	0.0	AB288028.1 Oryza sativa Japonica Group OsHAP2B mRNA for HAP2 subunit of HAP complex, complete cds.
GenBank	AK065163	0.0	AK065163.1 Oryza sativa Japonica Group cDNA clone:J013002C07, full insert sequence.
GenBank	HQ839673	0.0	HQ839673.1 Oryza sativa Japonica Group NF-Y transcription factor 22 (NF-Y22) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015618405.1	1e-159	nuclear transcription factor Y subunit A-7 isoform X2
TrEMBL	A0A0E0JCD4	1e-158	A0A0E0JCD4_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0RJY2	1e-158	A0A0E0RJY2_ORYRU; Uncharacterized protein
TrEMBL	A2ZMP1	1e-158	A2ZMP1_ORYSI; Uncharacterized protein
TrEMBL	I1R7T4	1e-158	I1R7T4_ORYGL; Uncharacterized protein
TrEMBL	Q2QM93	1e-158	Q2QM93_ORYSJ; CCAAT-box transcription factor complex WHAP5, putative, expressed
STRING	ORUFI12G20840.1	1e-159	(Oryza rufipogon)
STRING	OS12T0613000-01	1e-159	(Oryza sativa)
STRING	ONIVA12G17590.2	1e-159	(Oryza nivara)
STRING	ORGLA12G0159000.1	1e-159	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP6555	38	53
Representative plant	OGRP680	16	72

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30500.2	5e-44	nuclear factor Y, subunit A7

Link Out ? help Back to Top
Phytozome	LOC_Os12g41880.2
Entrez Gene	4352778

Publications ? help Back to Top
Rice Chromosomes 11 and 12 Sequencing Consortia The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol., 2005. 3: p. 20 [PMID:16188032] Thirumurugan T,Ito Y,Kubo T,Serizawa A,Kurata N Identification, characterization and interaction of HAP family genes in rice. Mol. Genet. Genomics, 2008. 279(3): p. 279-89 [PMID:18193457] Lee DK, et al. The NF-YA transcription factor OsNF-YA7 confers drought stress tolerance of rice in an abscisic acid independent manner. Plant Sci., 2015. 241: p. 199-210 [PMID:26706071]