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.144080.1

Common Name

Csa_5G219380, LOC101219425

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: 239aa MW: 26267.8 Da PI: 9.2328

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.144080.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	132.6	1.6e-41	49	148	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca++C+++pyf ++p+kfa vhk+FGasnv+k+l ++++++r da++slvyeA++r+rdPvyG++g i++lq+q+++l+ael+ Cucsa.144080.1 49 PCAACKLLRRRCAQECPFSPYFSPHEPHKFASVHKVFGASNVSKMLMEVSDNQRADAANSLVYEANVRLRDPVYGCMGAISALQHQIQSLQAELN 143 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e Cucsa.144080.1 144 AVRAE 148 *9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.633	48	149	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.2E-41	49	146	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 239 aa Download sequence Send to blast
MSKERERFDE IAKKIKRETD VSSNIPPQQI MGRRHSLQGP PGALNTITPC AACKLLRRRC 60 AQECPFSPYF SPHEPHKFAS VHKVFGASNV SKMLMEVSDN QRADAANSLV YEANVRLRDP 120 VYGCMGAISA LQHQIQSLQA ELNAVRAEIL RHKFREANNI IHSSPQQQHV PFLSSSSTVV 180 VSVALPPPPP PPPLPPPHHH DASSSSSSLY NRRTVAAAAD YSTISSNENV TYFVEKLG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-44	49	165	11	127	LOB family transfactor Ramosa2.1
5ly0_B	9e-44	49	165	11	127	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	LN681900	0.0	LN681900.1 Cucumis melo genomic scaffold, anchoredscaffold00041.
GenBank	LN713264	0.0	LN713264.1 Cucumis melo genomic chromosome, chr_10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004146476.1	1e-173	PREDICTED: LOB domain-containing protein 15
Swissprot	Q8L5T5	2e-81	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A0A0KM94	1e-171	A0A0A0KM94_CUCSA; Uncharacterized protein
STRING	XP_004146476.1	1e-172	(Cucumis sativus)
STRING	XP_004158981.1	1e-172	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2298	34	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	6e-84	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Cucsa.144080.1
Entrez Gene	101219425

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] Ohashi-Ito K,Iwamoto K,Fukuda H LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements. Plant Cell Physiol., 2018. 59(5): p. 989-996 [PMID:29444288]