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.250990.1

Common Name

Csa_3G180300, LOC101216878

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: 155aa MW: 17142.6 Da PI: 7.7419

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.250990.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	126.4	1.4e-39	5	104	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+C++dC+++p fp+++p++f +vh+++Gasnv k+l++lp++ r +a+++l++eA++r++dPvyG+vg+i++lq++l+ ++++la Cucsa.250990.1 5 RCAACKYLRRRCPSDCIFSPFFPSNNPQRFTIVHRIYGASNVAKFLHQLPTHLRAEAAETLIFEAKCRIEDPVYGCVGIISQLQHELHVAETQLA 99 6********************************************************************************************** PP DUF260 96 llkee 100 ++++e Cucsa.250990.1 100 KTRAE 104 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.141	4	105	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.7E-39	5	102	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 155 aa Download sequence Send to blast
MISGRCAACK YLRRRCPSDC IFSPFFPSNN PQRFTIVHRI YGASNVAKFL HQLPTHLRAE 60 AAETLIFEAK CRIEDPVYGC VGIISQLQHE LHVAETQLAK TRAEIACVAS NVQEQPQPQD 120 FAFEPIQGPN SVGFSQIGLS TPAHCFNSTF FLNS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-34	6	105	12	111	LOB family transfactor Ramosa2.1
5ly0_B	3e-34	6	105	12	111	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	LN681848	1e-133	LN681848.1 Cucumis melo genomic scaffold, anchoredscaffold00006.
GenBank	LN713260	1e-133	LN713260.1 Cucumis melo genomic chromosome, chr_6.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004140854.1	1e-111	PREDICTED: LOB domain-containing protein 24-like
Swissprot	P59468	9e-51	LBD24_ARATH; LOB domain-containing protein 24
TrEMBL	A0A0A0L9N7	1e-110	A0A0A0L9N7_CUCSA; Uncharacterized protein
STRING	XP_004140854.1	1e-111	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3697	30	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26660.1	4e-53	LOB domain-containing protein 24

Link Out ? help Back to Top
Phytozome	Cucsa.250990.1
Entrez Gene	101216878

Publications ? help Back to Top
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]