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.009G169900.1

Common Name

B456_009G169900

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

LSD

Protein Properties

Length: 152aa MW: 16242.5 Da PI: 7.2846

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.009G169900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	29.9	9.3e-10	63	87	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lLsYP G + +C++C tV Gorai.009G169900.1 63 CGSCRQLLSYPEGTRQAKCSCCETV 87 ************************9 PP
2	zf-LSD1	38.2	2.3e-12	101	125	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C +C lL+YP+G+psV+C++C V Gorai.009G169900.1 101 CDSCALLLMYPYGSPSVKCSSCLSV 125 **********************876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.2E-14	60	90	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.6E-7	63	87	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.1E-9	98	126	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.3E-8	101	125	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009617	Biological Process	response to bacterium

Sequence ? help Back to Top
Protein Sequence Length: 152 aa Download sequence Send to blast
MAAAMSLSTT KVSSFSSHLS SRPPPPLFFS GSDPYPVSDR VDTSTASQIA PSPEMAQMAQ 60 MVCGSCRQLL SYPEGTRQAK CSCCETVNFV LEAHQVGLVR CDSCALLLMY PYGSPSVKCS 120 SCLSVTEIGE HNRRPPWSVQ QGQPTPPNSL H*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

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	AC243102	4e-56	AC243102.1 Gossypium arboreum clone GM226J06-jme, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012443123.1	3e-67	PREDICTED: protein LOL2
Swissprot	O65426	1e-41	LOL2_ARATH; Protein LOL2
TrEMBL	A0A0D2TLC6	1e-106	A0A0D2TLC6_GOSRA; Uncharacterized protein
STRING	Gorai.009G169900.1	1e-107	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13611	22	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21610.1	4e-42	lsd one like 2

Link Out ? help Back to Top
Phytozome	Gorai.009G169900.1

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]