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

Ciclev10000009m

Common Name

CICLE_v10000009mg

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: 2166aa MW: 237901 Da PI: 8.4689

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10000009m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.1	9.9e-06	2031	2052	6	27
-SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHgp 27 C++f +tG C G++C+ +H++ Ciclev10000009m 2031 CPTFKATGSCALGAKCRLHHPK 2052 *****************99985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.507	1921	1950	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.057	1921	1949	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.6	1950	1974	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.718	1954	1975	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0025	1976	2001	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.22	1976	2002	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.61	2003	2029	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.066	2003	2030	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4	2030	2052	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	8.005	2031	2053	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0043484	Biological Process	regulation of RNA splicing
GO:0060149	Biological Process	negative regulation of posttranscriptional gene silencing
GO:0016607	Cellular Component	nuclear speck
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 2166 aa Download sequence Send to blast
MDSPYVHQSR YVTISSSPPP SNPNLYRPQI YLAPPPPHRP PPPHPPPQQQ LLPPPPPPQQ 60 LYHHCQPPPT VPPPVQKVSF NSHHSQFQFS PNFSPNPKPQ NQYHHQRSND FAHRISINDD 120 RLQQHQQTDR RHHHHRQHPV ADFEARQDVW DRHPRIQPDH RPVVSRLDRH HEFDHRPLSP 180 YRSMDKIKHE LDTTSYRFRE RYSNDVVQFE HTGSNNSNQR VDFVSHRSQF VSTSDRLNSS 240 NYDNQHGSQF DSNELMSNNV RDVGLNRPVF KERESRDSLL GRGSNSENSG DGVRAFSGKR 300 EFYASDAGRY GNNRGSREHS YEYNRTPRKQ VQKKSALLRI QKPYYRNRDD GELHHSNYEI 360 KSGSFRGNDQ VVFSDRDVGE HEQREGSPVE LDVSFKSNSL VAKAIVATSS SAIVSDANLT 420 PKKGNTRKIV MSNKDHSSLQ MNKPLDSSRK LGGSRDAVNN ALVSEDKDSK QAEKKVAPSC 480 ANKCDTNSNP CSSGSNTSPA KITVEKLKSI VPEKCGTTKT SALKVAKKKK VAKRVVKKAI 540 NPTVHVSGSQ PTEKLDELLK ADASTLGAPA ASVLKMGVKP SKDKISSAAM ASGHLDDLQA 600 YTYEANMSPG TEQVGGSPET AMVSKEVSTD GDSCAPCVTK VKRKRSGSIS PLACSSHKET 660 KIDEGSVNAD GCLHVLNTAS NFDKDLTKLL NETNFSDIGG LEGADKHFCH NGHSLLHENS 720 ETKEYSDPLL REGRNINSDL KSLEEIRRHE VHVNTCSSAH GMNTTTSCNI GLLSSQEKMT 780 DSEVGILNAS SKQPCKGQMS SSVNSSTVEG CPSVMLPGRC EISAFSSSEE TDFHNASTHV 840 DHSNGDKGSC SGSDRVIINS EEINPGTGDY NGRQLATNEV TIAIEGGHAG GLANTMFSVG 900 SREFGMSNNT DKCKVMTSVS DFPDAMVSDM DTGPVKAFSS VQSLNTALSV KDSFPVEVRV 960 TEGLDVGLQS SSDGLSVFRG HNSTGGCSEA NVSESSGLNG SSPENRKRRK VSANHPGFTS 1020 EIVPQISEGP VTPDLSTSGV ELPSNSTEGQ MHPEEGVAVS NMDTLCDSSL PPCPDGITVL 1080 LDSGSAQISS EVAVSVHTNA SGFGDDSLKV EPCIVEPSLA FGESDNANVR TTCPPGSEGK 1140 QIVNEDPVVD GTNYNNEDMC TEKSKMENIE AFVVEEQVKA CNVTTEFVTP EHQSSDLNKI 1200 LPATDVESDC CLLERGDLSR AYRALVADGD GVSTTNSYDE MMEFDSISEL GSPEILSTVP 1260 VMNALNHEAS ASQISNEKVC RIEKIPSEEP VDEGFFNLSA HTSPSEHAKI NLKLDDMLES 1320 AHLVAQRTVS LPAQDVKDTG LTLNPMSGET NGKKHQASHC VSRIHPRRSS SVFTASRDLA 1380 SSTRTTCTTR PRTWHRTESS SASPAPGNKS LLPPQNQLPK KVAKYQSMSY IRKGNSLVRK 1440 PAPVAAVSQI SHGLTSSVYW LNSSGIGESK KTRGSEGGAD VVDPPSFLRG VNAPLERPRT 1500 PPLPVVAKVP NHATSSTGDY TSSPVAEPLP NGCSETKSDT QKLMEINDEL NFSNAALNIS 1560 KTPVNQTGSV NGLESQGELN DGTLCTSNVK RITYLKRKSN QLIAASNGCS LSVQNPDKTQ 1620 STASDGYYKR RKNQLIRTPL ESHINQTVSL ADGSFTSEGE KCAKDIFRRS DMSQSYKAVK 1680 KICKPIRFSL VWTLNSMQSS KSDDHFLYRG KVLPSLFPWK RTLYWRRFVQ DPVSISNNSS 1740 LSAISRKLLL LRKRDTVYTR SNHGFSLRKY KVLSVGGSSL KWSKSIENRS KKVNEEATLA 1800 VAAVEKKRQE NGAESFASET KIRIRSCRER IFRIGSVRYK MDSSRRTLQR ISDDSSPCAA 1860 GPALEKNAKK SYIPRRLVIG NDEYVRIGNG NQLIRDPKRR ARVLASEKVR WSLHTARLRL 1920 ARKRKYCQFF TRFGKCNKDN GKCPYIHDPS KIAVCTKFLK GLCSNSDCKL THKVIPERMP 1980 DCSYFLQGLC TNKNCPYRHV HVNPNASTCE GFLKGYCADG DECRKKHSYV CPTFKATGSC 2040 ALGAKCRLHH PKSRSNGKKS RRSRKPKNTH GRYFGSMLVE DSESQTAMSE RPTVQNNGNL 2100 FVEGKLVDYI GLDVSDKEAG ETNDALHELL DFNDSGASEL QLDDLDELIK PIRIMNSHPS 2160 SYSTG*

Sequence ? help Back to Top

Protein Sequence Length: 2166 aa Download sequence Send to blast

MDSPYVHQSR YVTISSSPPP SNPNLYRPQI YLAPPPPHRP PPPHPPPQQQ LLPPPPPPQQ  60
LYHHCQPPPT VPPPVQKVSF NSHHSQFQFS PNFSPNPKPQ NQYHHQRSND FAHRISINDD  120
RLQQHQQTDR RHHHHRQHPV ADFEARQDVW DRHPRIQPDH RPVVSRLDRH HEFDHRPLSP  180
YRSMDKIKHE LDTTSYRFRE RYSNDVVQFE HTGSNNSNQR VDFVSHRSQF VSTSDRLNSS  240
NYDNQHGSQF DSNELMSNNV RDVGLNRPVF KERESRDSLL GRGSNSENSG DGVRAFSGKR  300
EFYASDAGRY GNNRGSREHS YEYNRTPRKQ VQKKSALLRI QKPYYRNRDD GELHHSNYEI  360
KSGSFRGNDQ VVFSDRDVGE HEQREGSPVE LDVSFKSNSL VAKAIVATSS SAIVSDANLT  420
PKKGNTRKIV MSNKDHSSLQ MNKPLDSSRK LGGSRDAVNN ALVSEDKDSK QAEKKVAPSC  480
ANKCDTNSNP CSSGSNTSPA KITVEKLKSI VPEKCGTTKT SALKVAKKKK VAKRVVKKAI  540
NPTVHVSGSQ PTEKLDELLK ADASTLGAPA ASVLKMGVKP SKDKISSAAM ASGHLDDLQA  600
YTYEANMSPG TEQVGGSPET AMVSKEVSTD GDSCAPCVTK VKRKRSGSIS PLACSSHKET  660
KIDEGSVNAD GCLHVLNTAS NFDKDLTKLL NETNFSDIGG LEGADKHFCH NGHSLLHENS  720
ETKEYSDPLL REGRNINSDL KSLEEIRRHE VHVNTCSSAH GMNTTTSCNI GLLSSQEKMT  780
DSEVGILNAS SKQPCKGQMS SSVNSSTVEG CPSVMLPGRC EISAFSSSEE TDFHNASTHV  840
DHSNGDKGSC SGSDRVIINS EEINPGTGDY NGRQLATNEV TIAIEGGHAG GLANTMFSVG  900
SREFGMSNNT DKCKVMTSVS DFPDAMVSDM DTGPVKAFSS VQSLNTALSV KDSFPVEVRV  960
TEGLDVGLQS SSDGLSVFRG HNSTGGCSEA NVSESSGLNG SSPENRKRRK VSANHPGFTS  1020
EIVPQISEGP VTPDLSTSGV ELPSNSTEGQ MHPEEGVAVS NMDTLCDSSL PPCPDGITVL  1080
LDSGSAQISS EVAVSVHTNA SGFGDDSLKV EPCIVEPSLA FGESDNANVR TTCPPGSEGK  1140
QIVNEDPVVD GTNYNNEDMC TEKSKMENIE AFVVEEQVKA CNVTTEFVTP EHQSSDLNKI  1200
LPATDVESDC CLLERGDLSR AYRALVADGD GVSTTNSYDE MMEFDSISEL GSPEILSTVP  1260
VMNALNHEAS ASQISNEKVC RIEKIPSEEP VDEGFFNLSA HTSPSEHAKI NLKLDDMLES  1320
AHLVAQRTVS LPAQDVKDTG LTLNPMSGET NGKKHQASHC VSRIHPRRSS SVFTASRDLA  1380
SSTRTTCTTR PRTWHRTESS SASPAPGNKS LLPPQNQLPK KVAKYQSMSY IRKGNSLVRK  1440
PAPVAAVSQI SHGLTSSVYW LNSSGIGESK KTRGSEGGAD VVDPPSFLRG VNAPLERPRT  1500
PPLPVVAKVP NHATSSTGDY TSSPVAEPLP NGCSETKSDT QKLMEINDEL NFSNAALNIS  1560
KTPVNQTGSV NGLESQGELN DGTLCTSNVK RITYLKRKSN QLIAASNGCS LSVQNPDKTQ  1620
STASDGYYKR RKNQLIRTPL ESHINQTVSL ADGSFTSEGE KCAKDIFRRS DMSQSYKAVK  1680
KICKPIRFSL VWTLNSMQSS KSDDHFLYRG KVLPSLFPWK RTLYWRRFVQ DPVSISNNSS  1740
LSAISRKLLL LRKRDTVYTR SNHGFSLRKY KVLSVGGSSL KWSKSIENRS KKVNEEATLA  1800
VAAVEKKRQE NGAESFASET KIRIRSCRER IFRIGSVRYK MDSSRRTLQR ISDDSSPCAA  1860
GPALEKNAKK SYIPRRLVIG NDEYVRIGNG NQLIRDPKRR ARVLASEKVR WSLHTARLRL  1920
ARKRKYCQFF TRFGKCNKDN GKCPYIHDPS KIAVCTKFLK GLCSNSDCKL THKVIPERMP  1980
DCSYFLQGLC TNKNCPYRHV HVNPNASTCE GFLKGYCADG DECRKKHSYV CPTFKATGSC  2040
ALGAKCRLHH PKSRSNGKKS RRSRKPKNTH GRYFGSMLVE DSESQTAMSE RPTVQNNGNL  2100
FVEGKLVDYI GLDVSDKEAG ETNDALHELL DFNDSGASEL QLDDLDELIK PIRIMNSHPS  2160
SYSTG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6fbs_C	4e-18	1927	2052	41	168	Cleavage and polyadenylation specificity factor subunit 4
6fuw_C	4e-18	1927	2052	41	168	Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase

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_006434296.1	0.0	uncharacterized protein LOC18042948
TrEMBL	V4TCZ0	0.0	V4TCZ0_9ROSI; Uncharacterized protein
STRING	XP_006434296.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5780	10	12

Link Out ? help Back to Top
Phytozome	Ciclev10000009m
Entrez Gene	18042948