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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 | LOC_Os02g02424.1 | ||||||||
Organism | |||||||||
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; Oryza sativa
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Family | C2H2 | ||||||||
Protein Properties | Length: 380aa MW: 43774.7 Da PI: 8.2466 | ||||||||
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 | 18.7 | 4.6e-06 | 70 | 92 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cg sF + +Lk+H+++H LOC_Os02g02424.1 70 HTCQECGASFQKPAHLKQHMQSH 92 79*******************99 PP | |||||||
2 | zf-C2H2 | 21.9 | 4.4e-07 | 98 | 122 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirtH 23 + Cp dC+ s+ rk++L+rH+ +H LOC_Os02g02424.1 98 FICPleDCPFSYIRKDHLNRHMLKH 122 78*********************99 PP | |||||||
3 | zf-C2H2 | 15.5 | 4.8e-05 | 127 | 152 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++C+ Cg+ Fs k n++rH + H LOC_Os02g02424.1 127 FTCSmdGCGRKFSIKANMQRHVKEiH 152 89********************9988 PP | |||||||
4 | zf-C2H2 | 15.8 | 4e-05 | 164 | 188 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirtH 23 ++C+ C+k+F+ s +k+H +H LOC_Os02g02424.1 164 FVCKeeGCNKVFKYASKMKKHEESH 188 89*******************9988 PP | |||||||
5 | zf-C2H2 | 17.8 | 8.9e-06 | 255 | 279 | 2 | 23 |
EET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirt.H 23 kC+ C sFs+ksnL++Hi+ H LOC_Os02g02424.1 255 KCSfeGCECSFSNKSNLTKHIKAsH 279 688899***************9888 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00355 | 24 | 24 | 46 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 8.2E-6 | 67 | 89 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0017 | 70 | 92 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 13.547 | 70 | 97 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 72 | 92 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 2.85E-11 | 82 | 124 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 5.3E-12 | 90 | 124 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 8.808 | 98 | 127 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 5.5E-4 | 98 | 122 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 100 | 122 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.43E-8 | 108 | 156 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.1E-7 | 125 | 154 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 3.9E-4 | 127 | 152 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 12.154 | 127 | 157 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 129 | 152 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.0E-7 | 161 | 188 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0038 | 164 | 188 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 9.764 | 164 | 188 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 166 | 188 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 5.7 | 196 | 221 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 198 | 221 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 15 | 224 | 245 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 8.5E-6 | 236 | 276 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.01E-8 | 237 | 292 | No hit | No description |
SMART | SM00355 | 0.002 | 254 | 279 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.365 | 254 | 284 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 256 | 279 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 5.8 | 285 | 311 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 287 | 311 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
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: 380 aa Download sequence Send to blast |
MCSGDDIDGD MRVEATQHRD IRRYKCEFCT VVRSKKCLIR AHMVAHHKEE LDKSEIYKSN 60 GEKVVHEGDH TCQECGASFQ KPAHLKQHMQ SHSDERSFIC PLEDCPFSYI RKDHLNRHML 120 KHQGKLFTCS MDGCGRKFSI KANMQRHVKE IHEDETATKS NRQFVCKEEG CNKVFKYASK 180 MKKHEESHVK LDYVEVVCCE PGCMKTFTNV ECLRAHNQAC HQYVQCDICG EKHLKKNIKR 240 HLRAHEEVPS TERIKCSFEG CECSFSNKSN LTKHIKASHD QVKPFACRFT GCEKVFPYKH 300 VRDNHEKSSA HVYTQANFTE MDEQLLSCPR GGRKRKAVTV ETLTRKRVTM HGDASSLDNG 360 TEYLRWLLSG GDDDSSQTH* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1tf6_A | 1e-18 | 74 | 260 | 19 | 174 | PROTEIN (TRANSCRIPTION FACTOR IIIA) |
1tf6_D | 1e-18 | 74 | 260 | 19 | 174 | PROTEIN (TRANSCRIPTION FACTOR IIIA) |
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Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.18086 | 0.0 | callus| flower| leaf| panicle| stem |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | E-value | ||||
GEO | 32985682 | 0.0 |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Essential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os02g02424.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Phenotype -- Mutation ? help Back to Top | ||||||
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Source | ID | |||||
RiceGE | Os02g02424 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK100473 | 0.0 | AK100473.1 Oryza sativa Japonica Group cDNA clone:J023093M20, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015626855.1 | 0.0 | transcription factor IIIA isoform X1 | ||||
Swissprot | Q84MZ4 | 1e-104 | TF3A_ARATH; Transcription factor IIIA | ||||
TrEMBL | A0A0D3EZT1 | 0.0 | A0A0D3EZT1_9ORYZ; Uncharacterized protein | ||||
STRING | ORUFI02G01170.1 | 0.0 | (Oryza rufipogon) | ||||
STRING | ORGLA02G0010700.1 | 0.0 | (Oryza glaberrima) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP2382 | 38 | 82 | Representative plant | OGRP2981 | 16 | 27 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G72050.2 | 1e-106 | transcription factor IIIA |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os02g02424.1 |