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

Potri.012G092500.3

Common Name

POPTR_0012s09400g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C3H

Protein Properties

Length: 331aa MW: 37067.1 Da PI: 5.057

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.012G092500.3	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41.7	1.9e-13	130	152	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C f+++tGtCk+G++CkF+H+ Potri.012G092500.3 130 EDCAFYMKTGTCKFGANCKFNHP 152 89********************9 PP
2	zf-CCCH	34.6	3.3e-11	178	200	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 +C+++++tG CkyG C+F+H++ Potri.012G092500.3 178 ECKYYLKTGGCKYGTACRFNHSR 200 6********************95 PP
3	zf-CCCH	37	5.5e-12	229	252	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 +++C +f+r+G Ck+G++Ck++H+ Potri.012G092500.3 229 EKECEYFMRNGSCKFGANCKYNHP 252 689********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	8.5E-7	125	154	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.009	126	154	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.9E-7	126	153	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.9E-11	130	152	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-5	132	151	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.089	173	201	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.2E-4	173	200	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.96E-6	177	204	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.7E-9	178	200	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-6	179	200	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.4E-6	226	253	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.15	226	254	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.79E-6	227	253	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.5E-10	229	252	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.6E-4	232	251	IPR000571	Zinc finger, CCCH-type

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

Sequence ? help Back to Top
Protein Sequence Length: 331 aa Download sequence Send to blast
MDQQIESPIP IIHKEIPQLG FQSFSSSPRF PSTPSDPDQT ALDDDNHLHQ ELQNQLDLKE 60 GSLNSNDSHE EEEEEEEEFK SDKKIEFFYE SIEKVGDGGD DLENKNERSN DIENNNSSGY 120 HQYPVRPEAE DCAFYMKTGT CKFGANCKFN HPLRRKNQTV KEKTKEREEA TEKPSLIECK 180 YYLKTGGCKY GTACRFNHSR AKYSVPPVKI PMSPALELNF LGLPIRLGEK ECEYFMRNGS 240 CKFGANCKYN HPDPTAVGGS DHPSTFLNGG SASLPVPSSS SVGSWSSPRA LNDPTSFVPI 300 MFSPNQGVPP QSPDWNGYQK EVCIHLCHMP *

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.9941	0.0	leaf\| stem

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.012G092500.3

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	CU223165	0.0	CU223165.1 Populus EST from leave.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024438164.1	0.0	zinc finger CCCH domain-containing protein 67
Swissprot	Q9STM4	8e-73	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A2I4KKM1	0.0	A0A2I4KKM1_POPTR; C3H family protein
STRING	POPTR_0012s09400.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63260.1	4e-63	C3H family protein

Link Out ? help Back to Top
Phytozome	Potri.012G092500.3
Entrez Gene	7484448

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]