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

Ciclev10020995m

Common Name

CICLE_v10019979mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

C3H

Protein Properties

Length: 341aa MW: 37340.8 Da PI: 8.3634

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10020995m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	31.1	4.1e-10	50	70	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C++++rtG Ck+G C+F+H Ciclev10020995m 50 ECKYYLRTGGCKFGKACRFNH 70 7******************** PP
2	zf-CCCH	40.4	4.9e-13	93	117	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++r+G CkyG++C+F+H+ Ciclev10020995m 93 GEKECPYYMRNGSCKYGANCRFNHP 117 7899********************9 PP
3	zf-CCCH	28.9	2e-09	228	254	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f+rtG Cky ++Ck++H++ Ciclev10020995m 228 PGQPECSYFLRTGDCKYKSNCKYHHPK 254 5789*********************96 PP
4	zf-CCCH	33.9	5.2e-11	275	299	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++ C++++r+G+Ck+G+ Ck+ H+ Ciclev10020995m 275 GQNVCSYYSRYGICKFGPACKYDHP 299 6678********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.117	45	73	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-4	45	72	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.2E-8	50	70	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.23E-5	50	73	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.9E-5	51	72	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-7	91	118	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.324	91	119	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-10	93	117	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-6	93	118	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-5	97	116	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.314	227	255	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-4	227	254	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.0E-7	229	254	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.19E-5	231	256	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.0E-4	233	253	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-6	271	299	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.558	273	301	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.0E-6	273	300	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-8	275	299	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: 341 aa Download sequence Send to blast
MLKCSVSSFF CLPFVGFKSS KEKVKEREEL IERPGQSQSQ GQSESQSQIE CKYYLRTGGC 60 KFGKACRFNH TRAKSTVAPV LELNFLGLPI RPGEKECPYY MRNGSCKYGA NCRFNHPDPT 120 AVGGSDSPSG YGNGGSVSSQ APSQASIGSW SSPRALNEPA PFVPMMYSPT PGVPSQNSEW 180 NGYQSPLYPQ ERSVQSAPTY VINNNPLVDN VQIIHQPQML VDEFPERPGQ PECSYFLRTG 240 DCKYKSNCKY HHPKNRIPKS PPCTLSDKGL PLRPGQNVCS YYSRYGICKF GPACKYDHPI 300 HPDASAEYGL DPPPSFGDST TRQETGMAGT GNGNGSDKNI *

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ccl.2144	1e-119	flower

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_006440009.1	0.0	zinc finger CCCH domain-containing protein 67 isoform X1
Swissprot	Q9STM4	1e-119	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4SZH1	0.0	V4SZH1_9ROSI; Uncharacterized protein
STRING	XP_006440009.1	0.0	(Citrus clementina)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-120	C3H family protein

Link Out ? help Back to Top
Phytozome	Ciclev10020995m
Entrez Gene	18048472

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]