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

GSBRNA2T00001972001

Common Name

GSBRNA2T00001972001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 220aa MW: 23720.1 Da PI: 8.0345

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00001972001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	96.9	2.1e-30	2	103	1	97
DUF260 1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C++C+vlr++C+++C+l+p++ +++q +++ +v+k+FG++ ++++++++pe++ +++++sl+yeA+ r+ +Pv+Gavg+++++++ GSBRNA2T00001972001 2 SCNGCRVLRKGCSESCILRPCIqwiesAEAQGHATVFVAKFFGRAGLMSFISSVPESQSPALFQSLLYEACGRTVNPVNGAVGLLWTGNW 91 6*******************9998777889****************************************************** PP DUF260 86 qleqlkaelall 97 +++q+++e++l+ GSBRNA2T00001972001 92 NICQAAVETVLR 103 ****998765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	18.947	1	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.5E-26	2	101	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 220 aa Download sequence Send to blast
MSCNGCRVLR KGCSESCILR PCIQWIESAE AQGHATVFVA KFFGRAGLMS FISSVPESQS 60 PALFQSLLYE ACGRTVNPVN GAVGLLWTGN WNICQAAVET VLRGGSSRPI PELLTRDAGF 120 GGFPSPTSDE ASEMPTTSPP KRKRLASEQQ QRPSSKLDLS LLPTFPIKTT PLKEETVRPE 180 TPSMYSGESV TTTPFMDNIA GERFVRVGGE TTKLLNLFA*

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00001972001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013603164.1	1e-155	PREDICTED: LOB domain-containing protein 38-like
Refseq	XP_013691392.1	1e-155	LOB domain-containing protein 38-like
Swissprot	Q9SN23	1e-114	LBD38_ARATH; LOB domain-containing protein 38
TrEMBL	A0A078FXI0	1e-159	A0A078FXI0_BRANA; BnaC08g21490D protein
STRING	Bo8g079200.1	1e-154	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM821	28	122

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G49940.1	1e-117	LOB domain-containing protein 38

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]