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.013G032200.1

Common Name

B456_013G032200, LOC105782753

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

C3H

Protein Properties

Length: 135aa MW: 14956.8 Da PI: 8.4725

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.013G032200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	27.9	3.9e-09	59	80	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C++f+ tG+C+yGd+Ck+ H+ Gorai.013G032200.1 59 VCNRFLNTGFCQYGDNCKYFHP 80 5******************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	2.7E-5	3	38	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	2.51E-14	4	45	No hit	No description
Pfam	PF06220	5.9E-11	5	38	IPR013085	Zinc finger, U1-C type
PROSITE profile	PS50103	14.286	54	82	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.53E-8	55	85	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0031	56	81	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-8	59	87	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-6	59	80	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 135 aa Download sequence Send to blast
MPLGKYYCDY CDKQFQDTPA ARKRHLQGLQ HLRAKAQWFH SQNAQDLYQT SVPPFSKGVC 60 NRFLNTGFCQ YGDNCKYFHP NNDSRTPNPP LSTAPPGGVE GNGNGMTISW GNLPPSLKPP 120 PEAGYPPLPF VDWG*

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	JX590223	1e-46	JX590223.1 Gossypium hirsutum clone NBRI_GE25093 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012463158.1	1e-96	PREDICTED: zinc finger CCCH domain-containing protein 3-like isoform X1
Swissprot	Q0JP11	4e-43	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	A0A0D2TUE7	2e-95	A0A0D2TUE7_GOSRA; Uncharacterized protein
STRING	Gorai.013G032200.1	4e-96	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10474	22	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	3e-45	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.013G032200.1
Entrez Gene	105782753

Publications ? help Back to Top
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] 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]