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

Ciclev10019979m

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: 477aa MW: 53161.7 Da PI: 4.8615

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10019979m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41	3.2e-13	127	148	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C f+++tGtCk+G++CkF+H+ Ciclev10019979m 127 DCTFYMKTGTCKFGSNCKFNHP 148 7********************9 PP
2	zf-CCCH	30.5	6.3e-10	186	206	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C++++rtG Ck+G C+F+H Ciclev10019979m 186 ECKYYLRTGGCKFGKACRFNH 206 7******************** PP
3	zf-CCCH	39.8	7.4e-13	229	253	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++r+G CkyG++C+F+H+ Ciclev10019979m 229 GEKECPYYMRNGSCKYGANCRFNHP 253 7899********************9 PP
4	zf-CCCH	28.3	3.1e-09	364	390	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f+rtG Cky ++Ck++H++ Ciclev10019979m 364 PGQPECSYFLRTGDCKYKSNCKYHHPK 390 5789*********************96 PP
5	zf-CCCH	33.3	7.9e-11	411	435	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++ C++++r+G+Ck+G+ Ck+ H+ Ciclev10019979m 411 GQNVCSYYSRYGICKFGPACKYDHP 435 6678********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.7E-6	122	149	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.03E-7	122	150	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.544	122	150	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.4E-11	127	148	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-5	128	147	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.117	181	209	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-4	181	208	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.3E-8	186	206	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.09E-5	186	209	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-4	187	208	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.324	227	255	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-7	227	254	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.3E-10	229	253	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.88E-6	229	254	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-5	233	252	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-4	363	390	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.314	363	391	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-6	365	390	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	367	392	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-6	407	435	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.558	409	437	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.0E-6	409	436	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.4E-8	411	435	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: 477 aa Download sequence Send to blast
MELSELISVP NLNHEKTKFE LGLQSSSPKS DLDPPPSDLD YTAGIEEELR NLDLREAEEI 60 DSIKAAEIEI VVEEEDEEEE EEEEEESESD ENNKSNIIVQ NEIQNENEYG NQMRKRYPYP 120 VRPDAQDCTF YMKTGTCKFG SNCKFNHPVR RKNQSSKEKV KEREELIERP GQSQSQGQSE 180 SQSQIECKYY LRTGGCKFGK ACRFNHTRAK STVAPVLELN FLGLPIRPGE KECPYYMRNG 240 SCKYGANCRF NHPDPTAVGG SDSPSGYGNG GSVSSQAPSQ ASIGSWSSPR ALNEPAPFVP 300 MMYSPTPGVP SQNSEWNGYQ SPLYPQERSV QSAPTYVINN NPLVDNVQII HQPQMLVDEF 360 PERPGQPECS YFLRTGDCKY KSNCKYHHPK NRIPKSPPCT LSDKGLPLRP GQNVCSYYSR 420 YGICKFGPAC KYDHPIHPDA SAEYGLDPPP SFGDSTTRQE TGMAGTGNGN GSDKNI*

Sequence ? help Back to Top

Protein Sequence Length: 477 aa Download sequence Send to blast

MELSELISVP NLNHEKTKFE LGLQSSSPKS DLDPPPSDLD YTAGIEEELR NLDLREAEEI  60
DSIKAAEIEI VVEEEDEEEE EEEEEESESD ENNKSNIIVQ NEIQNENEYG NQMRKRYPYP  120
VRPDAQDCTF YMKTGTCKFG SNCKFNHPVR RKNQSSKEKV KEREELIERP GQSQSQGQSE  180
SQSQIECKYY LRTGGCKFGK ACRFNHTRAK STVAPVLELN FLGLPIRPGE KECPYYMRNG  240
SCKYGANCRF NHPDPTAVGG SDSPSGYGNG GSVSSQAPSQ ASIGSWSSPR ALNEPAPFVP  300
MMYSPTPGVP SQNSEWNGYQ SPLYPQERSV QSAPTYVINN NPLVDNVQII HQPQMLVDEF  360
PERPGQPECS YFLRTGDCKY KSNCKYHHPK NRIPKSPPCT LSDKGLPLRP GQNVCSYYSR  420
YGICKFGPAC KYDHPIHPDA SAEYGLDPPP SFGDSTTRQE TGMAGTGNGN GSDKNI*

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-144	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4VKL3	0.0	V4VKL3_9ROSI; Uncharacterized protein
STRING	XP_006440009.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4176	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-142	C3H family protein

Link Out ? help Back to Top
Phytozome	Ciclev10019979m
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]