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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Glyma.12G118800.1.p | ||||||||
Common Name | GLYMA_12G118800 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
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Family | C2H2 | ||||||||
Protein Properties | Length: 472aa MW: 51622.7 Da PI: 8.8745 | ||||||||
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 | 14.6 | 9.4e-05 | 68 | 88 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ Cgk F r nL+ H r H Glyma.12G118800.1.p 68 CETCGKGFQRDQNLQLHRRGH 88 *******************88 PP | |||||||
2 | zf-C2H2 | 13.5 | 0.00022 | 142 | 164 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Glyma.12G118800.1.p 142 WKCEKCSKRYAVQSDWKAHSKTC 164 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 1.03E-6 | 65 | 88 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 8.4E-5 | 66 | 88 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 11.593 | 66 | 88 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 68 | 88 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.5E-4 | 130 | 163 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.03E-6 | 137 | 162 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 472 aa Download sequence Send to blast |
MLRNMDEGEI MTNIAFPQNL TASAASSDHN NPPPSLKRKR NLPGNPDPEA QVIALSPKTL 60 MATNRFLCET CGKGFQRDQN LQLHRRGHNL PWKLKQRTGK EARKRVYVCP EKSCVHHDPS 120 RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYK CDCGTIFSRR 180 DSFITHRAFC DALAEETARV NAASDINTSL GGNIGYNIMG TSLGPNMATH FPSIFKPISS 240 TDETSNQTSR GLPLWMGQTS SQAQETMVNT NFREIHQLGS ATSSSGTMYG GNSILQYSNL 300 PPSNNYQLSW VFGTKISNSS NNQELTTNTT TTTSLPIGNS SVPSLYCSQH QPQQTCSSAN 360 MSATALLQKA AQIGATSSDP SWLGSLGLKC GNSQGQDGNN NKYSDMYGSS LVLTTLGSEA 420 DNSACELSQM HPHKRRHVLN EESGGGQTRD FLGVGVQNHL PHFINQGVDL I* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 2e-36 | 138 | 207 | 3 | 72 | Zinc finger protein JACKDAW |
5b3h_F | 2e-36 | 138 | 207 | 3 | 72 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00125 | DAP | Transfer from AT1G03840 | Download |
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Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.12G118800.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AC235296 | 0.0 | AC235296.1 Glycine max strain Williams 82 clone GM_WBb0059O10, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_028238076.1 | 0.0 | zinc finger protein NUTCRACKER-like | ||||
Swissprot | Q9ZWA6 | 1e-138 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | A0A445HPD8 | 0.0 | A0A445HPD8_GLYSO; Zinc finger protein MAGPIE | ||||
TrEMBL | I1LS81 | 0.0 | I1LS81_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA12G13810.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4626 | 29 | 51 | Representative plant | OGRP95 | 16 | 242 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G03840.1 | 1e-137 | C2H2 family protein |
Link Out ? help Back to Top | |
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Phytozome | Glyma.12G118800.1.p |
Publications ? help Back to Top | |||
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