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.338130.1

Common Name

Csa_3G822390, LOC101215818

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: 190aa MW: 20039.4 Da PI: 9.3365

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.338130.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127.4	6.7e-40	30	131	1	101
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkC+++C++ap+f+++q +++fa+vhk+FGasnv+kll ++p ++r+da+ ++ yeA+ar++dPvyG+v+++l+lqqq+++l+ael Cucsa.338130.1 30 PCGACKFLRRKCVNGCIFAPHFASDQgAARFAAVHKIFGASNVSKLLLHIPVSRRNDAVVTISYEAQARLSDPVYGCVSTVLALQQQVASLQAEL 124 7***********************89*************************************************************** PP DUF260 95 allkeel 101 a+++++l Cucsa.338130.1 125 AAVQAQL 131 *9985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.084	29	131	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.4E-38	30	128	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009867	Biological Process	jasmonic acid mediated signaling pathway
GO:1900150	Biological Process	regulation of defense response to fungus

Sequence ? help Back to Top
Protein Sequence Length: 190 aa Download sequence Send to blast
MADADQLPRR KPLGNKRANR DPDSATVTAP CGACKFLRRK CVNGCIFAPH FASDQGAARF 60 AAVHKIFGAS NVSKLLLHIP VSRRNDAVVT ISYEAQARLS DPVYGCVSTV LALQQQVASL 120 QAELAAVQAQ LISSRLAFAA AVQNSQSSQV GVLQPAYSNN SSISASTSAP NAINLSSFAS 180 NYDLPTETAX

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-39	22	132	3	112	LOB family transfactor Ramosa2.1
5ly0_B	8e-39	22	132	3	112	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	LN681841	1e-159	LN681841.1 Cucumis melo genomic scaffold, anchoredscaffold00011.
GenBank	LN713258	1e-159	LN713258.1 Cucumis melo genomic chromosome, chr_4.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004136784.1	1e-134	PREDICTED: LOB domain-containing protein 20
Swissprot	Q9SRV3	1e-69	LBD20_ARATH; LOB domain-containing protein 20
TrEMBL	A0A0A0LCJ9	1e-132	A0A0A0LCJ9_CUCSA; Uncharacterized protein
STRING	XP_004136784.1	1e-133	(Cucumis sativus)
STRING	XP_004159662.1	1e-133	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF7715	31	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G03760.1	2e-53	LOB domain-containing protein 20

Link Out ? help Back to Top
Phytozome	Cucsa.338130.1
Entrez Gene	101215818

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]