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

AT3G02380.1

Common Name

ATCOL2, BBX3, COL2, F11A12.106, F11A12.7, F16B3.2

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

CO-like

Protein Properties

Length: 347aa MW: 38523.7 Da PI: 5.6369

Description

CONSTANS-like 2

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G02380.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	18.8	3.4e-06	14	56	4	40
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHkg......Htvv 40 r C+++ + + +Ce ++ +lC +C H H++v AT3G02380.1 14 RACDTCRSAACTVYCEADSAYLCTTCDARVHAAnrvasrHERV 56 57****99****************999556677778766 PP
2	zf-B_box	32.4	2e-10	56	101	3	42
zf-B_box 3 erkCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42 r+C+ +e+ ++ + C+ + lC C e+H+ H++vp+ AT3G02380.1 56 VRVCQSCESAPAAFLCKADAASLCTACDAEIHSAnplarrHQRVPI 101 689***************************668999999997 PP
3	CCT	68.5	1.8e-23	278	320	1	43
CCT 1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkq 43 Rea++lRY+eK+ktRkF+K+irY+sRKa+Ae RpR+KGrF+k+ AT3G02380.1 278 REARVLRYREKKKTRKFDKTIRYASRKAYAEIRPRIKGRFAKR 320 9****************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	10.779	11	58	IPR000315	B-box-type zinc finger
SMART	SM00336	2.0E-8	11	58	IPR000315	B-box-type zinc finger
CDD	cd00021	4.66E-8	14	58	No hit	No description
PROSITE profile	PS50119	11.661	54	101	IPR000315	B-box-type zinc finger
Pfam	PF00643	5.1E-8	56	101	IPR000315	B-box-type zinc finger
CDD	cd00021	6.31E-9	57	101	No hit	No description
SMART	SM00336	5.0E-11	59	101	IPR000315	B-box-type zinc finger
PROSITE profile	PS51017	16.44	278	320	IPR010402	CCT domain
Pfam	PF06203	3.2E-17	278	320	IPR010402	CCT domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009658	Biological Process	chloroplast organization
GO:0009909	Biological Process	regulation of flower development
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0048576	Biological Process	positive regulation of short-day photoperiodism, flowering
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 347 aa Download sequence Send to blast
MLKEESNESG TWARACDTCR SAACTVYCEA DSAYLCTTCD ARVHAANRVA SRHERVRVCQ 60 SCESAPAAFL CKADAASLCT ACDAEIHSAN PLARRHQRVP ILPLSANSCS SMAPSETDAD 120 NDEDDREVAS WLLPNPGKNI GNQNNGFLFG VEYLDLVDYS SSMDNQFEDN QYTHYQRSFG 180 GDGVVPLQVE ESTSHLQQSQ QNFQLGINYG FSSGAHYNNN SLKDLNHSAS VSSMDISVVP 240 ESTASDITVQ HPRTTKETID QLSGPPTQVV QQLTPMEREA RVLRYREKKK TRKFDKTIRY 300 ASRKAYAEIR PRIKGRFAKR IETEAEAEEI FSTSLMSETG YGIVPSF

Sequence ? help Back to Top

Protein Sequence Length: 347 aa Download sequence Send to blast

MLKEESNESG TWARACDTCR SAACTVYCEA DSAYLCTTCD ARVHAANRVA SRHERVRVCQ  60
SCESAPAAFL CKADAASLCT ACDAEIHSAN PLARRHQRVP ILPLSANSCS SMAPSETDAD  120
NDEDDREVAS WLLPNPGKNI GNQNNGFLFG VEYLDLVDYS SSMDNQFEDN QYTHYQRSFG  180
GDGVVPLQVE ESTSHLQQSQ QNFQLGINYG FSSGAHYNNN SLKDLNHSAS VSSMDISVVP  240
ESTASDITVQ HPRTTKETID QLSGPPTQVV QQLTPMEREA RVLRYREKKK TRKFDKTIRY  300
ASRKAYAEIR PRIKGRFAKR IETEAEAEEI FSTSLMSETG YGIVPSF

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.10373	0.0	leaf\| vegetative tissue

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145338016	0.0
Genevisible	258497_at	0.0
Expression Atlas	AT3G02380	-
AtGenExpress	AT3G02380	-
ATTED-II	AT3G02380	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed throughout development.
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaves. Expressed at lower levels in stems, flowers and siliques. Not detected in roots.

Functional Description ? help Back to Top
Source	Description
TAIR	homologous to the flowering-time gene CONSTANS (CO) encoding zinc-finger proteins
UniProt	Putative transcription factor. Does not affect flowering time.

Function -- GeneRIF ? help Back to Top
The lack of flowering promotion activity by COL1 and COL2 is mainly attributed to the differences between CO and the COL1 and COL2 proteins in the amino acid sequence encoded by their first exons. [PMID: 23265320]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G02380.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expressed with a circadian rhythm showing a peak at dawn.

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

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q96502

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G02380

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF370149	0.0	AF370149.1 Arabidopsis thaliana putative flowering-time gene CONSTANS protein COL2 (At3g02380) mRNA, complete cds.
GenBank	AY059092	0.0	AY059092.1 Arabidopsis thaliana putative flowering-time gene CONSTANS protein COL2 (At3g02380) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_186887.1	0.0	CONSTANS-like 2
Swissprot	Q96502	0.0	COL2_ARATH; Zinc finger protein CONSTANS-LIKE 2
TrEMBL	A0A178VE79	0.0	A0A178VE79_ARATH; COL2
STRING	AT3G02380.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2128	26	70
Representative plant	OGRP691	17	67

Link Out ? help Back to Top
Phytozome	AT3G02380.1
Entrez Gene	821298
iHOP	AT3G02380
wikigenes	AT3G02380

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Ledger S,Strayer C,Ashton F,Kay SA,Putterill J Analysis of the function of two circadian-regulated CONSTANS-LIKE genes. Plant J., 2001. 26(1): p. 15-22 [PMID:11359606] Robson F, et al. Functional importance of conserved domains in the flowering-time gene CONSTANS demonstrated by analysis of mutant alleles and transgenic plants. Plant J., 2001. 28(6): p. 619-31 [PMID:11851908] Goff SA, et al. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science, 2002. 296(5565): p. 92-100 [PMID:11935018] Izawa T,Takahashi Y,Yano M Comparative biology comes into bloom: genomic and genetic comparison of flowering pathways in rice and Arabidopsis. Curr. Opin. Plant Biol., 2003. 6(2): p. 113-20 [PMID:12667866] Griffiths S,Dunford RP,Coupland G,Laurie DA The evolution of CONSTANS-like gene families in barley, rice, and Arabidopsis. Plant Physiol., 2003. 131(4): p. 1855-67 [PMID:12692345] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Hu W,Wang Y,Bowers C,Ma H Isolation, sequence analysis, and expression studies of florally expressed cDNAs in Arabidopsis. Plant Mol. Biol., 2003. 53(4): p. 545-63 [PMID:15010618] Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant J., 2004. 38(2): p. 366-79 [PMID:15078338] S ABA activates ADPR cyclase and cADPR induces a subset of ABA-responsive genes in Arabidopsis. Plant J., 2004. 38(3): p. 381-95 [PMID:15086800] Fukamatsu Y, et al. Identification of LOV KELCH PROTEIN2 (LKP2)-interacting factors that can recruit LKP2 to nuclear bodies. Plant Cell Physiol., 2005. 46(8): p. 1340-9 [PMID:15937324] Hannah MA,Heyer AG,Hincha DK A global survey of gene regulation during cold acclimation in Arabidopsis thaliana. PLoS Genet., 2005. 1(2): p. e26 [PMID:16121258] Wang J, et al. Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics, 2006. 172(1): p. 507-17 [PMID:16172500] 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] Schranz ME,Mitchell-Olds T Independent ancient polyploidy events in the sister families Brassicaceae and Cleomaceae. Plant Cell, 2006. 18(5): p. 1152-65 [PMID:16617098] Khanna R, et al. Functional profiling reveals that only a small number of phytochrome-regulated early-response genes in Arabidopsis are necessary for optimal deetiolation. Plant Cell, 2006. 18(9): p. 2157-71 [PMID:16891401] Thomas BC,Rapaka L,Lyons E,Pedersen B,Freeling M Arabidopsis intragenomic conserved noncoding sequence. Proc. Natl. Acad. Sci. U.S.A., 2007. 104(9): p. 3348-53 [PMID:17301222] Chia TY,M Sugar beet contains a large CONSTANS-LIKE gene family including a CO homologue that is independent of the early-bolting (B) gene locus. J. Exp. Bot., 2008. 59(10): p. 2735-48 [PMID:18495636] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Charron JB,Ouellet F,Houde M,Sarhan F The plant Apolipoprotein D ortholog protects Arabidopsis against oxidative stress. BMC Plant Biol., 2008. 8: p. 86 [PMID:18671872] Khanna R, et al. The Arabidopsis B-box zinc finger family. Plant Cell, 2009. 21(11): p. 3416-20 [PMID:19920209] Arabidopsis Interactome Mapping Consortium Evidence for network evolution in an Arabidopsis interactome map. Science, 2011. 333(6042): p. 601-7 [PMID:21798944] Ruckle ME,Burgoon LD,Lawrence LA,Sinkler CA,Larkin RM Plastids are major regulators of light signaling in Arabidopsis. Plant Physiol., 2012. 159(1): p. 366-90 [PMID:22383539] Kim SK,Park HY,Jang YH,Lee JH,Kim JK The sequence variation responsible for the functional difference between the CONSTANS protein, and the CONSTANS-like (COL) 1 and COL2 proteins, resides mostly in the region encoded by their first exons. Plant Sci., 2013. 199-200: p. 71-8 [PMID:23265320] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Simon S,Rühl M,de Montaigu A,Wötzel S,Coupland G Evolution of CONSTANS Regulation and Function after Gene Duplication Produced a Photoperiodic Flowering Switch in the Brassicaceae. Mol. Biol. Evol., 2015. 32(9): p. 2284-301 [PMID:25972346]