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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Cagra.9217s0004.1.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | C2H2 | ||||||||
Protein Properties | Length: 1309aa MW: 146660 Da PI: 7.2305 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 12.9 | 0.00033 | 1220 | 1243 | 2 | 23 |
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +C+ Cgk F+ + +L+ H+r+H Cagra.9217s0004.1.p 1220 RCTheGCGKKFRAHKYLVLHQRVH 1243 588889****************99 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00545 | 1.9E-15 | 15 | 55 | IPR003349 | JmjN domain |
PROSITE profile | PS51183 | 14.16 | 16 | 57 | IPR003349 | JmjN domain |
Pfam | PF02375 | 7.2E-16 | 17 | 50 | IPR003349 | JmjN domain |
PROSITE profile | PS51184 | 33.22 | 259 | 425 | IPR003347 | JmjC domain |
SMART | SM00558 | 4.1E-43 | 259 | 425 | IPR003347 | JmjC domain |
SuperFamily | SSF51197 | 3.84E-25 | 262 | 423 | No hit | No description |
Pfam | PF02373 | 5.5E-37 | 289 | 408 | IPR003347 | JmjC domain |
SMART | SM00355 | 73 | 1196 | 1218 | IPR015880 | Zinc finger, C2H2-like |
SMART | SM00355 | 0.057 | 1219 | 1243 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 13.027 | 1219 | 1248 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 6.6E-7 | 1220 | 1248 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 1221 | 1243 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.61E-10 | 1235 | 1277 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.9E-10 | 1249 | 1273 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0035 | 1249 | 1273 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 12.695 | 1249 | 1278 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 1251 | 1273 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.59E-8 | 1267 | 1301 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 7.9E-10 | 1274 | 1302 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 1.1 | 1279 | 1305 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 1281 | 1305 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0009741 | Biological Process | response to brassinosteroid | ||||
GO:0009826 | Biological Process | unidimensional cell growth | ||||
GO:0033169 | Biological Process | histone H3-K9 demethylation | ||||
GO:0048577 | Biological Process | negative regulation of short-day photoperiodism, flowering | ||||
GO:0048579 | Biological Process | negative regulation of long-day photoperiodism, flowering | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 1309 aa Download sequence Send to blast |
MGSVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV 60 FHNLNKSLLK CPELVSDVDI SREDRAVFTT RQQELGQTVK KTKGEKSKSI SQRTGVKQVW 120 QSGGVYTLEQ FEAKSKTFYK SQLGTVKEVS PVVVEALFWK AASQKPIYIE YANDVPGSAF 180 GEPEGHFRHF RQRKRRGRGF YQRKTEINDP SDKIGENSSP EVEKAPLAST SLSPQDSSKQ 240 KNTDIVDEME GTAGWKLSNS SWNLQTIARS PGSVTRFMPD DIPGVTSPMV YIGMLFSWFA 300 WHVEDHELHS MNYLHTGSPK TWYAVPCDYA LEFEEVIRKN SYGKNIDQLA ALTQLGEKTT 360 LVSPEMIVAS GIPCCRLVQN HGEFVVTFPR SYHVGFSHGF NCGEAANFGT PQWLNVAKEA 420 AVRRAAMNYL PMLSHQQLLY LLTMSFVSRV PRSFLPGGRS SRLRDRQREE REFLVKKAFV 480 EDILNENKNL SVLLREPGSR LVMWDPDLLP RHSALALAAV GGAATSAVLP PSVATNIPEE 540 GHSELQNKEK TTLLEELSLF MEKLNDVYYD DDDGLLNDFQ VDSGTLPCVA CGVLGFPFMS 600 VVQPSEKALK DLLEGQGKID AQEIMTLSSE KSHCEWKTSS RYIRPRIFCL EHTIELQRLL 660 QSKGGMKFLI ICHKDFQKFK AHAATVAEEV KVPFSYDDVL LEGASQEELS LIDLAIEDEE 720 NYKHAIDWTS ELGINLRYCV KVRKNSSTKK IQHALSLGGL FSDRSHMLDF STIRWLQRKS 780 RSKAKPSSTS SFTHREQLQV KVDGKLGENL DSQTEKKEKK IIQYSRKKKL NSKPSVEQGQ 840 DLAPLAESRE FGKTCNKLAN MSHLDSSIRF DGAHDQEHPE ITIKFGSALD GNVTNSVSMV 900 NGYSADLSSV SREQQGHSMT SNNNGSNAGS HVVASQTVLI STGDNHVRPR KFSGDYVCSD 960 VSVRDLQEVV EMSDQEFGGP RSTVTNIEDE QQSQMVQPTK REAVSGDHGQ MEGAEAVCTR 1020 EILCSDIILQ TEHSSAQVGM EIPEINTASE NMVVDMTHDG EPLESSDILS SSNGDQASSN 1080 GLQVPDDELS MESEVSSSEN TEVIEAPNST GEAKKKMKID SVFETNDNLE SSIGFIRSPC 1140 EGLRSRGKRK SRSETWLKLT ETSGEAKRPI AKRGKKTPKA RSGSLQQEDP TTTHPNRCYL 1200 EGCKMTFDSK AKLQTHKRNR CTHEGCGKKF RAHKYLVLHQ RVHNDDRPFE CSWEGCSMTF 1260 KWQWARTEHL RLHTGERPYK CKVEGCELSF RFVSDYSRHR RKTGHYVA* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6ip0_A | 5e-54 | 9 | 439 | 8 | 346 | Transcription factor jumonji (Jmj) family protein |
6ip4_A | 5e-54 | 9 | 439 | 8 | 346 | Arabidopsis JMJ13 |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 815 | 829 | KKEKKIIQYSRKKKL |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Acts probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Cagra.9217s0004.1.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AY664500 | 0.0 | AY664500.1 Arabidopsis thaliana early flowering 6 (ELF6) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006286906.1 | 0.0 | probable lysine-specific demethylase ELF6 | ||||
Swissprot | Q6BDA0 | 0.0 | ELF6_ARATH; Probable lysine-specific demethylase ELF6 | ||||
TrEMBL | R0GSE7 | 0.0 | R0GSE7_9BRAS; Uncharacterized protein | ||||
STRING | Cagra.9217s0004.1.p | 0.0 | (Capsella grandiflora) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM11520 | 27 | 31 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G04240.1 | 0.0 | C2H2 family protein |
Link Out ? help Back to Top | |
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Phytozome | Cagra.9217s0004.1.p |
Publications ? help Back to Top | |||
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