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.001G138300.1

Common Name

B456_001G138300, LOC105794216

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: 686aa MW: 75373.7 Da PI: 6.7984

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.001G138300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.4	7.9e-06	279	300	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 ++C++f++ G Ck Gd C +aHg Gorai.001G138300.1 279 APCPDFRK-GSCKQGDLCEYAHG 300 59****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	1.71E-14	56	155	IPR020683	Ankyrin repeat-containing domain
Pfam	PF12796	2.4E-10	72	145	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50297	14.079	76	151	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50088	8.736	76	98	IPR002110	Ankyrin repeat
SMART	SM00248	8.1E-4	76	106	IPR002110	Ankyrin repeat
Gene3D	G3DSA:1.25.40.20	2.5E-15	76	156	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	1.01E-13	78	151	No hit	No description
PROSITE profile	PS50088	9.805	111	146	IPR002110	Ankyrin repeat
SMART	SM00248	0.036	111	143	IPR002110	Ankyrin repeat
SMART	SM00356	7.8E-5	275	301	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-4	279	301	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.446	280	302	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.5E-4	307	338	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	17	310	333	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 686 aa Download sequence Send to blast
MCGNLDTPSS SEETKTMDCL TGAVGNNCSF SVLLEFAADN DVEGFQRYMI ASHVSLVGEV 60 GLWYGYRKSS KQMVVEQRTP LMIAARYGSV DVVKLILSLS EVDVNLSCGP DKRTALHCAA 120 SGGSIRAVEV VKLLLLAAAD PCVSDAYGYR PSDVIVAPWN MPQIKVSLEE LLNNRGLVCL 180 EKLHDSGSSS LVSDVKITAV TCKTTDNIVS SAQEKEYPVD PSFPDINSSI YSTDEFRMFS 240 FKIRPCSRAY SHDWTECPFV HPGENARRRD PRKFHYSCAP CPDFRKGSCK QGDLCEYAHG 300 VFESWLHPAQ YRTRICKDGT TCKRRVCFFA HRPEELRPLY LSSGLGIQSP QSAASSVITM 360 DKMGVLNLFP GSPSALTAIS VSPFSPAMSP SANVISQAPT GWPQHVPTLH LSGSNLQGSR 420 LRSSLSAKDM SVMELNMSLD FEVHQQRYLS NLSCLSQPHL AHKSSNLDGL FSTEVCSTRC 480 PNQVTAMPIL SPVLSDKLEQ QQRVLSPIET NIFSPKNDHP LLQSAFDASL SERISTWNVE 540 PLSPLNSLLS ASTNLEKLQQ SLHNLSTQEL GYKLSNDLES KGVTGSLLNS WPKRETPNCK 600 VDWPVQEDEF SQFHKSCSIL HRGMEPTVSL VQSMVKESPS VPTTLATSSR TLPVEGSNSN 660 FRGKLGDHEI FLALCKQLQL DKIMA*

Sequence ? help Back to Top

Protein Sequence Length: 686 aa Download sequence Send to blast

MCGNLDTPSS SEETKTMDCL TGAVGNNCSF SVLLEFAADN DVEGFQRYMI ASHVSLVGEV  60
GLWYGYRKSS KQMVVEQRTP LMIAARYGSV DVVKLILSLS EVDVNLSCGP DKRTALHCAA  120
SGGSIRAVEV VKLLLLAAAD PCVSDAYGYR PSDVIVAPWN MPQIKVSLEE LLNNRGLVCL  180
EKLHDSGSSS LVSDVKITAV TCKTTDNIVS SAQEKEYPVD PSFPDINSSI YSTDEFRMFS  240
FKIRPCSRAY SHDWTECPFV HPGENARRRD PRKFHYSCAP CPDFRKGSCK QGDLCEYAHG  300
VFESWLHPAQ YRTRICKDGT TCKRRVCFFA HRPEELRPLY LSSGLGIQSP QSAASSVITM  360
DKMGVLNLFP GSPSALTAIS VSPFSPAMSP SANVISQAPT GWPQHVPTLH LSGSNLQGSR  420
LRSSLSAKDM SVMELNMSLD FEVHQQRYLS NLSCLSQPHL AHKSSNLDGL FSTEVCSTRC  480
PNQVTAMPIL SPVLSDKLEQ QQRVLSPIET NIFSPKNDHP LLQSAFDASL SERISTWNVE  540
PLSPLNSLLS ASTNLEKLQQ SLHNLSTQEL GYKLSNDLES KGVTGSLLNS WPKRETPNCK  600
VDWPVQEDEF SQFHKSCSIL HRGMEPTVSL VQSMVKESPS VPTTLATSSR TLPVEGSNSN  660
FRGKLGDHEI FLALCKQLQL DKIMA*

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	JX615159	2e-80	JX615159.1 Gossypium hirsutum clone NBRI_GE59007 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012478728.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Refseq	XP_012478734.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Refseq	XP_012478742.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Refseq	XP_012478750.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Refseq	XP_012478756.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Refseq	XP_012478763.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 56-like isoform X1
Swissprot	Q9LXV4	0.0	C3H56_ARATH; Zinc finger CCCH domain-containing protein 56
TrEMBL	A0A0D2LYK5	0.0	A0A0D2LYK5_GOSRA; Uncharacterized protein
STRING	Gorai.001G138300.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM22361	4	5

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12850.1	0.0	CCCH-type zinc finger protein with ARM repeat domain

Link Out ? help Back to Top
Phytozome	Gorai.001G138300.1
Entrez Gene	105794216

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]