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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.13G293800.1.p | ||||||||
Common Name | GLYMA_13G293800 | ||||||||
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: 475aa MW: 52317.5 Da PI: 9.0902 | ||||||||
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 | 14.7 | 9e-05 | 61 | 83 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C k F r nL+ H r H Glyma.13G293800.1.p 61 FVCEICLKGFQRDQNLQLHRRGH 83 89*******************88 PP | |||||||
2 | zf-C2H2 | 13.5 | 0.00022 | 137 | 159 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Glyma.13G293800.1.p 137 WKCEKCSKRYAVQSDWKAHSKTC 159 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.160.60 | 1.8E-4 | 60 | 83 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.305 | 61 | 83 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 63 | 83 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.5E-4 | 125 | 158 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 9.55E-5 | 132 | 181 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010150 | Biological Process | leaf senescence | ||||
GO:0045893 | Biological Process | positive regulation of transcription, DNA-templated | ||||
GO:0048510 | Biological Process | regulation of timing of transition from vegetative to reproductive phase | ||||
GO:0048573 | Biological Process | photoperiodism, flowering | ||||
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: 475 aa Download sequence Send to blast |
MLEKMDDGEI SNAFPHQNPS TAASNNQPPT LKRKRNLPGN PDPEAEVIVL SPKTLMATNR 60 FVCEICLKGF QRDQNLQLHR RGHNLPWKLK QRTSKEVRKR VYVCPEKTCV HHHPSRALGD 120 LTGIKKHFCR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYKCDCGT IFSRRDSFIT 180 HRAFCDALAE ETARVNAASN ISNYSIMQNP LGPNMTTQFS SFFKPNSCSD QEPAPGNQTS 240 NKGLSLWMTQ TSQAHEAMAN NNNLHEFHQL GSVTSPTAIY GTSGNPLASC SNPPPSNYQL 300 NWVFGNKLSS NGSHQELTST ASLPLVNNIV KDNPNLQLIS VPSLYSSQHQ SHQASSANMS 360 ATALLQKAAQ VGTTSSDPSS LFHGSIGLKC NSPGQDGNKF CGMYGSSSVL TTSHHGSEAE 420 NNNNNYSGDL SQIPPTKRRH VQNEESAWGQ TRDFLGVGGA NHLPPFINQR MDLI* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 6e-37 | 133 | 200 | 3 | 70 | Zinc finger protein JACKDAW |
5b3h_F | 6e-37 | 133 | 200 | 3 | 70 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}. | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.13G293800.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}. |
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 | AP015040 | 0.0 | AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_003539541.2 | 0.0 | zinc finger protein MAGPIE | ||||
Refseq | XP_028193041.1 | 0.0 | zinc finger protein MAGPIE-like | ||||
Swissprot | Q9FFH3 | 1e-136 | IDD8_ARATH; Zinc finger protein NUTCRACKER | ||||
TrEMBL | A0A445IBV9 | 0.0 | A0A445IBV9_GLYSO; Zinc finger protein NUTCRACKER | ||||
TrEMBL | I1M3P4 | 0.0 | I1M3P4_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA13G36960.1 | 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-136 | C2H2 family protein |
Link Out ? help Back to Top | |
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Phytozome | Glyma.13G293800.1.p |
Publications ? help Back to Top | |||
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