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.002G152600.1

Common Name

B456_002G152600, LOC105785411

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

C2H2

Protein Properties

Length: 336aa MW: 38313.9 Da PI: 7.4293

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.002G152600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.6	9.5e-05	257	279	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C +Cgk F + + ++H +++ Gorai.002G152600.1 257 FMCRKCGKAFAVRGDWRTHEKNC 279 89*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.77E-5	169	196	No hit	No description
SMART	SM00355	0.38	173	195	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.9E-6	173	192	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.097	173	200	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	175	195	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.28E-6	239	277	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.7E-6	244	277	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	49	257	277	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	8.808	257	277	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 336 aa Download sequence Send to blast
MADNHYSNFF SGWFKFNPLD QHYPSPIHPL QKPNPHPQNS HKNGTNNLNP FLHYRTTYSS 60 PPPSPPVREA LPLLSLSPTR HYKDEDGVYQ DQDQEQHSCT AMDVNGEDDD ETVTVTVALH 120 IGLPSASASE LASVLSASSE MTEQDDEYPI NRLKKRQYWI PTPSQILIGP SQFSCPVCCK 180 TFNRYNNMQM HMWAHGSQYR KGTESLRGTQ PTAMLRLPCY CCAPGCRNNI DHPRPKPLKD 240 FRTLQTHYKR KHGIKPFMCR KCGKAFAVRG DWRTHEKNCG KLWYCICGSD FKHKRSLKDH 300 IKAFGDGHQV YATDDLEEDD DEPASEVEQH NGSLH*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269\|PubMed:17600712}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

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	JX579096	1e-168	JX579096.1 Gossypium hirsutum clone NBRI_GE11269 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012466946.1	0.0	PREDICTED: zinc finger protein WIP2-like
Swissprot	Q9SVY1	1e-129	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	A0A0D2Q716	0.0	A0A0D2Q716_GOSRA; Uncharacterized protein
STRING	Gorai.002G152600.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM239	28	237

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-126	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Gorai.002G152600.1
Entrez Gene	105785411

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] Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]