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

Solyc12g005770.1.1

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

C3H

Protein Properties

Length: 448aa MW: 50215.5 Da PI: 7.7518

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc12g005770.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.4	3.7e-06	7	30	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ykt+lC+ ++r G C++ +C+FaHg Solyc12g005770.1.1 7 YKTKLCMLYQR-GRCHR-QTCSFAHG 30 9********.*.*****8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	6.47E-5	4	35	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-9	5	36	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.986	6	32	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: 448 aa Download sequence Send to blast
MVERKLYKTK LCMLYQRGRC HRQTCSFAHG NAELRRFSGS GGEMRDFRGR DLREKLDREH 60 SPVGRYSSGK GHSPVGRYSS GRGHSPVGRY SSERGHSPVG RYSSDRDARE RHASRGRSPP 120 ESVERSDRKR RMKQHSDGQS DISGSLNMSD GTGDHVKEKK HLSSNSKDVL QLRQLQSEIN 180 MLDDEKRELE IYLEETTCQA ESLASKNQEL EMELFKEKEE RKRITLKTKQ FIEAYTNHSR 240 LEAELKRSEA QLQKLAYKLS SDFIRTGASE EDSAINISDG GMAGNHFSSL VEQQKNTSPT 300 KKRPRIHHEA DETSNQALTR AKGNGAQRIS YPTQLSNEKK DEADFSSDMT FTNKPKASES 360 AVVLPPTSMA AHAKDEDAEV GETEEKLEVA GNATRRAGKG VPSGITEYPF LPPPPPLPRG 420 SSLQFKRDDA GDDEDGRDEE MLEVDIV*

Sequence ? help Back to Top

Protein Sequence Length: 448 aa Download sequence Send to blast

MVERKLYKTK LCMLYQRGRC HRQTCSFAHG NAELRRFSGS GGEMRDFRGR DLREKLDREH  60
SPVGRYSSGK GHSPVGRYSS GRGHSPVGRY SSERGHSPVG RYSSDRDARE RHASRGRSPP  120
ESVERSDRKR RMKQHSDGQS DISGSLNMSD GTGDHVKEKK HLSSNSKDVL QLRQLQSEIN  180
MLDDEKRELE IYLEETTCQA ESLASKNQEL EMELFKEKEE RKRITLKTKQ FIEAYTNHSR  240
LEAELKRSEA QLQKLAYKLS SDFIRTGASE EDSAINISDG GMAGNHFSSL VEQQKNTSPT  300
KKRPRIHHEA DETSNQALTR AKGNGAQRIS YPTQLSNEKK DEADFSSDMT FTNKPKASES  360
AVVLPPTSMA AHAKDEDAEV GETEEKLEVA GNATRRAGKG VPSGITEYPF LPPPPPLPRG  420
SSLQFKRDDA GDDEDGRDEE MLEVDIV*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.6108	0.0	callus\| flower\| fruit\| leaf\| root

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc12g005770.1.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004251510.1	0.0	zinc finger CCCH domain-containing protein 13 isoform X1
TrEMBL	A0A0V0IUN5	0.0	A0A0V0IUN5_SOLCH; Putative zinc finger CCCH domain-containing protein 13-like
STRING	Solyc12g005770.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA6123	9	9
Representative plant	OGRP5164	12	15

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G21810.1	7e-25	C3H family protein

Link Out ? help Back to Top
Phytozome	Solyc12g005770.1.1

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505]