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

Gorai.005G232500.1

Common Name

B456_005G232500, LOC105795188

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

LBD

Protein Properties

Length: 217aa MW: 22595.4 Da PI: 4.6777

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G232500.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	90.9	1.6e-28	2	104	1	98
DUF260 1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +C++C++lr++C+++C+l++ + p++q++++ +v+k+FG++ ++++l+++ +r+++++sl++eA ra +Pv+Gavg++++++++ Gorai.005G232500.1 2 SCNGCRILRKGCSENCMLRQSLqcienPQAQAHATVFVAKFFGRAGLMSFLSSVASPQRPALFQSLLFEAVGRAINPVSGAVGLLWTGNWN 92 6********************99************************************************************** PP DUF260 87 leqlkaelallk 98 ++q++++++l++ Gorai.005G232500.1 93 VCQSAVQTVLQG 104 ***9988765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	17.654	1	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.1E-24	2	101	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 217 aa Download sequence Send to blast
MSCNGCRILR KGCSENCMLR QSLQCIENPQ AQAHATVFVA KFFGRAGLMS FLSSVASPQR 60 PALFQSLLFE AVGRAINPVS GAVGLLWTGN WNVCQSAVQT VLQGGTLQPL PEFSGGVSGS 120 DFEDVGETVG VGGGGGAGGP CIQSGGFVDV VECKASDLNL CLMIGDDDRA VQRRRESTSS 180 EESETTTLGS RFSGDGNSSN DSCGADGERK LLRLFI*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

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	JX581778	2e-89	JX581778.1 Gossypium hirsutum clone NBRI_GE14483 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012480162.1	1e-155	PREDICTED: LOB domain-containing protein 38-like isoform X1
Swissprot	Q9SN23	5e-60	LBD38_ARATH; LOB domain-containing protein 38
TrEMBL	A0A0D2RK81	1e-153	A0A0D2RK81_GOSRA; Uncharacterized protein
STRING	Gorai.005G232500.1	1e-154	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM22269	4	5

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G49940.1	4e-62	LOB domain-containing protein 38

Link Out ? help Back to Top
Phytozome	Gorai.005G232500.1
Entrez Gene	105795188

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]