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

Gh_A05G2722

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

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

Family

HB-other

Protein Properties

Length: 313aa MW: 35536.2 Da PI: 4.4949

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A05G2722	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	25.1	3e-08	258	292	21	55
HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS Homeobox 21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 k +yp++ ++ LA +gL+ +q+ +WF N+R ++ Gh_A05G2722 258 KWPYPTEGDKMALAGTTGLDPKQINNWFINQRKRH 292 579*****************************885 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01255	5.3E-19	74	118	IPR005540	KNOX1
Pfam	PF03790	1.6E-19	76	115	IPR005540	KNOX1
SMART	SM01256	1.8E-24	124	175	IPR005541	KNOX2
Pfam	PF03791	1.7E-24	128	174	IPR005541	KNOX2
PROSITE profile	PS50071	12.179	232	295	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.35E-18	233	302	IPR009057	Homeodomain-like
SMART	SM00389	5.8E-12	234	299	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.4E-27	237	296	IPR009057	Homeodomain-like
CDD	cd00086	1.62E-11	244	296	No hit	No description
Pfam	PF05920	3.8E-16	252	291	IPR008422	Homeobox KN domain
PROSITE pattern	PS00027	0	270	293	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:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 313 aa Download sequence Send to blast
MDEIYGFYSM GDQYVDNALM LPENMIFPSD YQPRLCSSDR VPAFGSDELI SVASAISEAA 60 YVTPQIQGEV DVSNVIKAKI ASHPYYPRLL EAYIDCQKVG ATPEIARILD EILMETDVNK 120 RDILPTCLGA DPELDEFMET YCDMLVKYKS DISRPFDEAT TFLNKIEMQL RNLCTGASIT 180 GPSDEGGESS EGDVSVGEDD VEELQPRSKD IGLKDLLLHR FGNHITTLKL EFSKKKKKGK 240 LPKEARQILL EWWNVHSKWP YPTEGDKMAL AGTTGLDPKQ INNWFINQRK RHWKPSETFQ 300 MDDLSGRFFI DQE

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First detected in torpedo stage embryos at the boundaries between the presumptive SAM and the cotyledons. Later expressed between the cotyledons and the meristem, and between the cotyledons. In seedlings, localised in stipules and at the boundaries between the SAM and the emerging primordia. Expressed at the site of lateral roots. {ECO:0000269\|PubMed:16798887}.
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in shoot apices of seedlings, and, to a lower extent, in rosette leaves. {ECO:0000269\|PubMed:11311158}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a role in meristem function. Contributes to the shoot apical meristem (SAM) maintenance and organ separation by controlling boundary establishment in embryo in a CUC1, CUC2 and STM-dependent manner. Involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269\|PubMed:16798887}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Seems to be repressed by AS2 and AS1 but induced by STM, CUC1 and CUC2. {ECO:0000269\|PubMed:11311158, ECO:0000269\|PubMed:16798887}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX589039	2e-69	JX589039.1 Gossypium hirsutum clone NBRI_GE23646 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017605616.1	0.0	PREDICTED: homeobox protein knotted-1-like 6
Swissprot	Q84JS6	1e-132	KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBL	A0A2P5YXQ4	0.0	A0A2P5YXQ4_GOSBA; Uncharacterized protein
STRING	Gorai.009G336900.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM835	27	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G23380.1	1e-118	KNOTTED1-like homeobox gene 6

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Khan M, et al. Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis. Plant Physiol., 2015. 169(3): p. 2166-86 [PMID:26417006]