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

Cucsa.239660.1

Common Name

Csa_7G237840, LOC101213100

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

LBD

Protein Properties

Length: 163aa MW: 17488.1 Da PI: 7.9916

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.239660.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	143.9	4.8e-45	23	123	1	101
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca+dCv+apyfpa++p+kf vhk+FGasnv+kll++lpe++r+da+ss+vyeA+ar+rdPvyG+vg i+ lqqq++ l+++la Cucsa.239660.1 23 PCAACKLLRRRCAHDCVFAPYFPADHPHKFSSVHKVFGASNVSKLLQELPEQQRSDAVSSMVYEANARIRDPVYGCVGAISCLQQQVDALQQQLA 117 7********************************************************************************************** PP DUF260 96 llkeel 101 ++++l Cucsa.239660.1 118 ITQAQL 123 *99885 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.889	22	123	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.3E-44	23	120	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 163 aa Download sequence Send to blast
MASSEMMMMM NGSCKKGNGA AAPCAACKLL RRRCAHDCVF APYFPADHPH KFSSVHKVFG 60 ASNVSKLLQE LPEQQRSDAV SSMVYEANAR IRDPVYGCVG AISCLQQQVD ALQQQLAITQ 120 AQLVQMKMGQ FTTTSQSSSS TDDLLPPPPN INVAASSSLW SC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-50	19	131	7	119	LOB family transfactor Ramosa2.1
5ly0_B	5e-50	19	131	7	119	LOB family transfactor Ramosa2.1
Search in ModeBase

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	LN681800	1e-127	LN681800.1 Cucumis melo genomic scaffold, anchoredscaffold00017.
GenBank	LN713255	1e-127	LN713255.1 Cucumis melo genomic chromosome, chr_1.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004139827.1	1e-118	PREDICTED: LOB domain-containing protein 4-like
Swissprot	Q8LBW3	5e-55	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A0A0K5P4	1e-117	A0A0A0K5P4_CUCSA; Uncharacterized protein
STRING	XP_004139827.1	1e-118	(Cucumis sativus)
STRING	XP_004169335.1	1e-118	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1334	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	1e-50	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Cucsa.239660.1
Entrez Gene	101213100

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]