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

KN539136.1_FGP013

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

TALE

Protein Properties

Length: 174aa MW: 19867.6 Da PI: 8.8248

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN539136.1_FGP013	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	21.5	4.1e-07	112	140	27	55
HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS Homeobox 27 aeereeLAkklgLterqVkvWFqNrRake 55 +e++ +LA+ +gL+ +q+ +WF N+R ++ KN539136.1_FGP013 112 EEDKVRLAAMTGLDPKQINNWFINQRKRH 140 578889********************985 PP
2	ELK	34.2	5.6e-12	31	52	1	22
ELK 1 ELKhqLlrKYsgyLgsLkqEFs 22 ELK++Ll+KYsg+L+ L++EF+ KN539136.1_FGP013 31 ELKEMLLKKYSGCLSRLRSEFL 52 9********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03789	6.6E-9	31	52	IPR005539	ELK domain
PROSITE profile	PS51213	10.423	31	51	IPR005539	ELK domain
SMART	SM01188	3.6E-6	31	52	IPR005539	ELK domain
SMART	SM00389	5.4E-4	53	147	IPR001356	Homeobox domain
SuperFamily	SSF46689	7.56E-5	53	90	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.0E-25	56	145	IPR009057	Homeodomain-like
CDD	cd00086	4.83E-9	112	144	No hit	No description
SuperFamily	SSF46689	4.11E-10	112	154	IPR009057	Homeodomain-like
PROSITE profile	PS50071	9.62	112	143	IPR001356	Homeobox domain
Pfam	PF05920	2.0E-10	112	139	IPR008422	Homeobox KN domain
PROSITE pattern	PS00027	0	118	141	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 174 aa Download sequence Send to blast
MVGSSEDEPC SGDADAADFG QEHSSRLADH ELKEMLLKKY SGCLSRLRSE FLKKRKKGKL 60 PKDARSALMD WWNTHYRWPY PTVMSRKRLF DTQKPLTHTD LGLCLPIDLS QEEDKVRLAA 120 MTGLDPKQIN NWFINQRKRH WKPSEDMRFA LMEGVTGGSS SGTTLYFDTG TIGP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	46	55	LRSEFLKKRK
2	52	56	KKRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269\|PubMed:10080693}.
UniProt	Probable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269\|PubMed:10080693, ECO:0000269\|PubMed:10488233}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN539136.1_FGP013

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC130598	0.0	AC130598.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OSJNBa0056I11, complete sequence.
GenBank	AP014961	0.0	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015637898.1	5e-89	homeobox protein knotted-1-like 10
Refseq	XP_015692467.1	2e-89	PREDICTED: LOW QUALITY PROTEIN: homeobox protein knotted-1-like 10, partial
Swissprot	A2Y007	4e-90	KNOSA_ORYSI; Homeobox protein knotted-1-like 10
Swissprot	Q7GDL5	4e-90	KNOSA_ORYSJ; Homeobox protein knotted-1-like 10
TrEMBL	A0A0D9WCC3	2e-88	A0A0D9WCC3_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0KY08	1e-89	A0A0E0KY08_ORYPU; Uncharacterized protein
STRING	OPUNC05G01700.4	2e-90	(Oryza punctata)
STRING	LPERR05G01890.1	3e-89	(Leersia perrieri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1698	38	92

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G23380.2	4e-34	KNOTTED1-like homeobox gene 6

Publications ? help Back to Top
Ito Y,Eiguchi M,Kurata N KNOX homeobox genes are sufficient in maintaining cultured cells in an undifferentiated state in rice. Genesis, 2001. 30(4): p. 231-8 [PMID:11536429] Postma-Haarsma AD, et al. Developmental regulation and downstream effects of the knox class homeobox genes Oskn2 and Oskn3 from rice. Plant Mol. Biol., 2002. 48(4): p. 423-41 [PMID:11908517] Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Kuijt SJ, et al. Different subcellular localization and trafficking properties of KNOX class 1 homeodomain proteins from rice. Plant Mol. Biol., 2004. 55(6): p. 781-96 [PMID:15604716] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349] Chu H, et al. A CLE-WOX signalling module regulates root meristem maintenance and vascular tissue development in rice. J. Exp. Bot., 2013. 64(17): p. 5359-69 [PMID:24043854] Kuijt SJ, et al. Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors. Plant Physiol., 2014. 164(4): p. 1952-66 [PMID:24532604] Coudert Y, et al. Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation. New Phytol., 2015. 206(1): p. 243-54 [PMID:25442012] Xu Y, et al. OsARID3, an AT-rich Interaction Domain-containing protein, is required for shoot meristem development in rice. Plant J., 2015. 83(5): p. 806-17 [PMID:26121094] Kir G, et al. RNA Interference Knockdown of BRASSINOSTEROID INSENSITIVE1 in Maize Reveals Novel Functions for Brassinosteroid Signaling in Controlling Plant Architecture. Plant Physiol., 2015. 169(1): p. 826-39 [PMID:26162429]