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.008G157500.1

Common Name

B456_008G157500, LOC105764252

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: 310aa MW: 34362.5 Da PI: 8.0375

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.008G157500.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	46.7	5.3e-15	230	255	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +ktelC+ +++tG C+yGd C+FaHg Gorai.008G157500.1 230 FKTELCNKWQETGACPYGDHCQFAHG 255 79***********************8 PP
2	zf-CCCH	18.7	3.1e-06	268	292	1	25
--S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaH 25 ykte Cr +++ C+yG rC+F H Gorai.008G157500.1 268 YKTEVCRMVLAGDVCPYGHRCHFRH 292 9********55********88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	2.0E-19	224	262	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-11	226	261	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.7E-9	229	256	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.286	229	257	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.8E-12	230	255	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.1E-12	263	296	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.28E-8	263	298	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.3E-4	267	294	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.821	267	295	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 310 aa Download sequence Send to blast
MQNDNFATVY GDLAAKQSKD HQSDGVFSSS TTSSSTSAAS VFALYHPRIL MQQHQDMINR 60 HNLCLTRLRE AAKEAEALRQ ENTSLRSANR DLNKQLSALI QASVQNHFSS SDYNTTPFEL 120 VNALRGLCLG SGGGGEVDVS DESPTSVMEG GAVDVERVML PKSISVRSNG YLKMMNQAGA 180 SHRGKTRGPT RTGNTSQLSG AVNVQQKVYV QGGKKEEEPL ELEVYNQGMF KTELCNKWQE 240 TGACPYGDHC QFAHGIEELR PVIRHPRYKT EVCRMVLAGD VCPYGHRCHF RHALTEQEKF 300 MDHLKPRNR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	3e-22	230	296	4	70	Butyrate response factor 2
Search in ModeBase

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00383	ampDAP	Transfer from AT1G68200	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX577460	1e-119	JX577460.1 Gossypium hirsutum clone NBRI_GE9285 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012438225.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 15-like isoform X1
Refseq	XP_012438226.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 15-like isoform X1
Swissprot	Q9C9F5	2e-92	C3H15_ARATH; Zinc finger CCCH domain-containing protein 15
TrEMBL	A0A0D2RG25	0.0	A0A0D2RG25_GOSRA; Uncharacterized protein
STRING	Gorai.008G157500.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7287	23	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68200.1	4e-75	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.008G157500.1
Entrez Gene	105764252

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]