PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID KN539543.1_FGP003
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C3H
Protein Properties Length: 1822aa    MW: 199580 Da    PI: 7.6113
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539543.1_FGP003genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.29.1e-0616931714627
                         -SGGGGTS--TTTTT-SS-SSS CS
            zf-CCCH    6 CrffartGtCkyGdrCkFaHgp 27  
                         C+ f +tG+C+ G+rCk +H++
  KN539543.1_FGP003 1693 CPVFEATGECPQGSRCKLHHPK 1714
                         *****************99985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.915831611IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.03715831612IPR000571Zinc finger, CCCH-type
SMARTSM003561416121636IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.85916161637IPR000571Zinc finger, CCCH-type
SMARTSM003560.009416381663IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.23516381664IPR000571Zinc finger, CCCH-type
SMARTSM003567.7E-516651691IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.7616651692IPR000571Zinc finger, CCCH-type
SMARTSM003561.116921714IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.43716931715IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0043484Biological Processregulation of RNA splicing
GO:0060149Biological Processnegative regulation of posttranscriptional gene silencing
GO:0016607Cellular Componentnuclear speck
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1822 aa     Download sequence    Send to blast
MVHEGFSIHS DSKVSRKIQM PTQMALPGSP HGTSAGYARR APQKVAPSRV SVWHRIEENP  60
AMYEPSSPPP HMPKEVHVSP CKLNNVAPAS KELASVISVD CRGKSADGND GDSNTGTKKN  120
PVKKNEKVLA SVLVKPPMEP KEKEVAAKKM LKKPDKVQKN AVDSNIRSLV STPCPGAGAK  180
KVKKIVIKKI VRKINGKGNQ NSTPVVSEKR VSIDANACEK EEGEITTSSF EKDAISAHDP  240
IAVSDTAGFG NAVNDQKQKN TIFTNPSGRN AASAIGSTEI LDPPNGSGSA HPGKEEVRSP  300
KNPVDNNNAS LVVEPIEVLE KSGTEHPRKE HDMSSIGSGV NDAFADANNH TQKEVGEMNV  360
AVAINSLSVS NARELPRCDD SSMEESKVHK DVDANNAVCM DGVASNCDTT EVCENEDARR  420
ECEKNLIGIN DEKAFLLNNS ARSSSTSDTC MTAVEGAQKK EGIILTGSSE KSIGFLGDSV  480
RTRRTTELGA SKDAPNEGDD MPSHPSEKDF MSLNSCGGLN YTEVSEKKDI QEKEDRVPME  540
SIVVCTSSGN EDIQVNEGRK PMELSEANAF SGSEDIQGKE CRISMGSSET NTSSVNHVSA  600
SNEKDVSLSE DTQKKESHRP IESCKNTTFE IMHHEEAPSA EEVITDVSLG RKVAEGPTRS  660
NERCSGARGN SATTLKFGLA CATEDNQMED LLNNRTALNE TDDPLDAEDS PVFVPPSSRN  720
VESTYASPLY DPMEDSTSDG ILNIGLGRNT TSNAAELLDL HRDHMSSENY SFVHSRGTSS  780
VSGNREQSVP TALTLGSNIY FSSAETDDRP EERHELVAEG QQGLTVETTR KLDSPGKIEV  840
LNGAGFISTG IQNWLSLPPS INSMEMSGQF LNNGFTVSKG RLGLDQSMDY ATSVSQDHDI  900
AQDMDQRGSE DAFFSQDHSI RLCGSDLPHS HLLAPKESSM NGEDQSGIVL TGLHPSSSVN  960
VLGHYGYQTD DIPVDSLNKL PSALESSDAM DADQVSSQVC VNPDHTNDSN TENAGVESNA  1020
KQDLLSSWIE AIVSEAKKEH PPCKSTPLTV GLPDKLLEPK DSDRKTVLET VVPSAVKSPQ  1080
INFASSTLQK VAPKQVTLPS SSREPTRANQ NARHRTWHRG NIASSSSSLH ASQPLGLPPK  1140
LPPKKNDKAQ NSYIRKGNAL IRNPSNGNHP HSSTGQDTQN KLNKPVVRRS MNFVRKADTK  1200
DLANSNISVE RPKTPPLPLH TKSSCPTTLL EPLSQTLQKQ HGHEAEKEDL TGQPKSGVDN  1260
SSIKSAQKSE PSDPSKVVYV RPKSNQLVAA QRQHPVDLVN SSTDKILSLQ APIASDLYLK  1320
KRKNQIVLSS CSPSDGLSTK EMLPAENSNS EEKKDLMIAC SINGIPGVKD RPQKALQTTN  1380
NVGRFSHVWT LNGQQPQRKG FMGNSHMNAF PRILPWKRKI FCKNFRSSHM SNVSSIRIVR  1440
KLLQTRKRDM IYTVSTDGFS LRKSGVLSVG GSSLKWSRSL EKRSQKVNKE ATLALAEVER  1500
RKREKRKRQS LHDKGDNQFE SVTGNQLRNN RQSSSDLRKP STCNEYVRVS KGNQLVRNPK  1560
NVIRMLASDK VRWSLHTVRS RLAKKQQYCQ FFTRFGECKK PRGKCPYIHD RAKVTICTKF  1620
LKGLCSNTSC KLTHKVLPER MPDCSYFLRG LCTNIACPYR HVKVNLNAPV CEDFLKGYCA  1680
YGDECHKKHS YVCPVFEATG ECPQGSRCKL HHPKSKVKSK SRRPDFLQNS SWGRYFDASI  1740
DHQDETRKVS LDEDEREKPQ RVFSDGDLGF ISLDDDADED VTALDASDDI PLMELDSGDL  1800
SAQTDNLDAL IKPLRIMRTA RV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6fbs_C2e-161589171441168Cleavage and polyadenylation specificity factor subunit 4
6fuw_C2e-161589171441168Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
114991504RRKREK
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539543.1_FGP003
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0035730.0AP003573.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0523F01.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643043.10.0uncharacterized protein LOC4341610 isoform X2
TrEMBLB9FQ320.0B9FQ32_ORYSJ; Uncharacterized protein
STRINGORUFI06G23810.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP67031010