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

Ciclev10021952m

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: 241aa MW: 26009.8 Da PI: 7.6869

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10021952m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	27.8	4.4e-09	1	17	10	26
GGTS--TTTTT-SS-SS CS zf-CCCH 10 artGtCkyGdrCkFaHg 26 +r+G CkyG++C+F+H+ Ciclev10021952m 1 MRNGSCKYGANCRFNHP 17 89**************9 PP
2	zf-CCCH	29.5	1.3e-09	128	154	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f+rtG Cky ++Ck++H++ Ciclev10021952m 128 PGQPECSYFLRTGDCKYKSNCKYHHPK 154 5789*********************96 PP
3	zf-CCCH	34.6	3.3e-11	175	199	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++ C++++r+G+Ck+G+ Ck+ H+ Ciclev10021952m 175 GQNVCSYYSRYGICKFGPACKYDHP 199 6678********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00642	1.4E-6	1	17	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	21	1	18	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.164	1	19	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.9E-4	2	16	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.314	127	155	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-4	127	154	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-7	129	154	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.15E-6	131	156	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.5E-4	133	153	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-6	171	199	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.0E-6	173	200	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.558	173	201	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-8	175	199	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: 241 aa Download sequence Send to blast
MRNGSCKYGA NCRFNHPDPT AVGGSDSPSG YGNGGSVSSQ APSQASIGSW SSPRALNEPA 60 PFVPMMYSPT PGVPSQNSEW NGYQSPLYPQ ERSVQSAPTY VINNNPLVDN VQIIHQPQML 120 VDEFPERPGQ PECSYFLRTG DCKYKSNCKY HHPKNRIPKS PPCTLSDKGL PLRPGQNVCS 180 YYSRYGICKF GPACKYDHPI HPDASAEYGL DPPPSFGDST TRQETGMAGT GNGNGSDKNI 240 *

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	1e-176	zinc finger CCCH domain-containing protein 67 isoform X1
Refseq	XP_006440011.1	1e-177	zinc finger CCCH domain-containing protein 43 isoform X2
Swissprot	Q9STM4	5e-88	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4SZH1	1e-176	V4SZH1_9ROSI; Uncharacterized protein
TrEMBL	V4SZH5	1e-176	V4SZH5_9ROSI; Uncharacterized protein
TrEMBL	V4TTN0	1e-176	V4TTN0_9ROSI; Uncharacterized protein
TrEMBL	V4VKL3	1e-175	V4VKL3_9ROSI; Uncharacterized protein
STRING	XP_006440009.1	1e-176	(Citrus clementina)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	2e-90	C3H family protein

Link Out ? help Back to Top
Phytozome	Ciclev10021952m
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]