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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 | Glyma.20G005900.1.p | ||||||||
Common Name | GLYMA_20G005900 | ||||||||
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: 349aa MW: 39097.9 Da PI: 9.9435 | ||||||||
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 | 17 | 1.6e-05 | 71 | 93 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Glyma.20G005900.1.p 71 FICEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.7 | 0.00038 | 147 | 169 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Glyma.20G005900.1.p 147 WKCDKCSKKYAVQSDWKAHSKTC 169 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 | 1.26E-7 | 70 | 93 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 3.5E-6 | 70 | 93 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.99 | 71 | 93 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 1.5E-5 | 71 | 93 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.0052 | 71 | 93 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 73 | 93 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 130 | 112 | 142 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 3.4E-5 | 135 | 168 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.26E-7 | 142 | 167 | No hit | No description |
SMART | SM00355 | 150 | 147 | 167 | IPR015880 | Zinc finger, C2H2-like |
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: 349 aa Download sequence Send to blast |
MAAPFSAASL FAIREEDQNQ MKQQHSSTPS SSTTPAAPPP QKKRRNQPGT PYPDAEVIAL 60 SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG REYRCDCGTL 180 FSRRDSFITH RAFCDALAQE SAREAPNLSS AIGNQLYGNS NNMSLGLSQI PSIHDQNPQP 240 SELMRFSGAP RAGQFDHILP PNIASSSPFR HSMQTPPFFL QESNQTYHDS NKPFQGLIQL 300 SDLNNNNPSA SNLFNLPFLS NRAINSNNYS EEHNSTLLKG PISSQKAP* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 7e-34 | 143 | 203 | 3 | 64 | Zinc finger protein JACKDAW |
5b3h_F | 7e-34 | 143 | 203 | 3 | 64 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Gma.43829 | 0.0 | cotyledon |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.20G005900.1.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 | AP015043 | 1e-166 | AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_028221481.1 | 0.0 | protein indeterminate-domain 5, chloroplastic-like | ||||
Swissprot | Q9ZUL3 | 1e-114 | IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic | ||||
TrEMBL | I1ND00 | 0.0 | I1ND00_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA20G00850.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF1536 | 33 | 97 | Representative plant | OGRP95 | 16 | 242 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G02070.1 | 1e-102 | indeterminate(ID)-domain 5 |
Link Out ? help Back to Top | |
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Phytozome | Glyma.20G005900.1.p |
Publications ? help Back to Top | |||
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